update notebooks
Browse files- bindingdb_single.ipynb +1036 -0
- combine_dbs.ipynb +148 -125
bindingdb_single.ipynb
ADDED
|
@@ -0,0 +1,1036 @@
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 1 |
+
{
|
| 2 |
+
"cells": [
|
| 3 |
+
{
|
| 4 |
+
"cell_type": "code",
|
| 5 |
+
"execution_count": 1,
|
| 6 |
+
"id": "ecce356e-321b-441e-8a5d-a20bf72f8691",
|
| 7 |
+
"metadata": {},
|
| 8 |
+
"outputs": [],
|
| 9 |
+
"source": [
|
| 10 |
+
"import pandas as pd\n",
|
| 11 |
+
"import dask.dataframe as dd"
|
| 12 |
+
]
|
| 13 |
+
},
|
| 14 |
+
{
|
| 15 |
+
"cell_type": "code",
|
| 16 |
+
"execution_count": 2,
|
| 17 |
+
"id": "89cbcd82-4ca2-4aba-95b7-e58c0ceed770",
|
| 18 |
+
"metadata": {},
|
| 19 |
+
"outputs": [],
|
| 20 |
+
"source": [
|
| 21 |
+
"cols = ['Ligand SMILES', 'IC50 (nM)','KEGG ID of Ligand','Ki (nM)', 'Kd (nM)','EC50 (nM)']"
|
| 22 |
+
]
|
| 23 |
+
},
|
| 24 |
+
{
|
| 25 |
+
"cell_type": "code",
|
| 26 |
+
"execution_count": 3,
|
| 27 |
+
"id": "1b923f02-e858-4737-ab5e-4c98c2def1b6",
|
| 28 |
+
"metadata": {},
|
| 29 |
+
"outputs": [],
|
| 30 |
+
"source": [
|
| 31 |
+
"allseq = ['BindingDB Target Chain Sequence']+['BindingDB Target Chain Sequence.{}'.format(j) for j in range(1,13)]"
|
| 32 |
+
]
|
| 33 |
+
},
|
| 34 |
+
{
|
| 35 |
+
"cell_type": "code",
|
| 36 |
+
"execution_count": 4,
|
| 37 |
+
"id": "54f0721e-1e36-48cc-a635-a1617a04f9e5",
|
| 38 |
+
"metadata": {},
|
| 39 |
+
"outputs": [],
|
| 40 |
+
"source": [
|
| 41 |
+
"dtypes = {'BindingDB Target Chain Sequence.{}'.format(i): 'object' for i in range(1,13)}"
|
| 42 |
+
]
|
| 43 |
+
},
|
| 44 |
+
{
|
| 45 |
+
"cell_type": "code",
|
| 46 |
+
"execution_count": 5,
|
| 47 |
+
"id": "c1843c65-a5ef-4604-adca-40fb18bc2991",
|
| 48 |
+
"metadata": {},
|
| 49 |
+
"outputs": [],
|
| 50 |
+
"source": [
|
| 51 |
+
"dtypes.update({'BindingDB Target Chain Sequence': 'object',\n",
|
| 52 |
+
" 'IC50 (nM)': 'object',\n",
|
| 53 |
+
" 'KEGG ID of Ligand': 'object',\n",
|
| 54 |
+
" 'Ki (nM)': 'object',\n",
|
| 55 |
+
" 'Kd (nM)': 'object',\n",
|
| 56 |
+
" 'EC50 (nM)': 'object',\n",
|
| 57 |
+
" 'koff (s-1)': 'object'})"
|
| 58 |
+
]
|
| 59 |
+
},
|
| 60 |
+
{
|
| 61 |
+
"cell_type": "code",
|
| 62 |
+
"execution_count": 6,
|
| 63 |
+
"id": "aa337ac3-4ca1-4369-a9c7-ab705221a137",
|
| 64 |
+
"metadata": {},
|
| 65 |
+
"outputs": [],
|
| 66 |
+
"source": [
|
| 67 |
+
"seq_name = 'BindingDB Target Chain Sequence'"
|
| 68 |
+
]
|
| 69 |
+
},
|
| 70 |
+
{
|
| 71 |
+
"cell_type": "code",
|
| 72 |
+
"execution_count": 7,
|
| 73 |
+
"id": "a870d8d7-374b-4474-b9ee-305bbf9f17a9",
|
| 74 |
+
"metadata": {},
|
| 75 |
+
"outputs": [],
|
| 76 |
+
"source": [
|
| 77 |
+
"import tqdm.notebook"
|
| 78 |
+
]
|
| 79 |
+
},
|
| 80 |
+
{
|
| 81 |
+
"cell_type": "code",
|
| 82 |
+
"execution_count": 8,
|
| 83 |
+
"id": "e97d29e6-d153-480e-a1ee-c216c22af8d2",
|
| 84 |
+
"metadata": {},
|
| 85 |
+
"outputs": [],
|
| 86 |
+
"source": [
|
| 87 |
+
"ddf = dd.read_csv('bindingdb/data/BindingDB_All.tsv',sep='\\t',\n",
|
| 88 |
+
" error_bad_lines=False,\n",
|
| 89 |
+
" usecols=cols+allseq,\n",
|
| 90 |
+
" dtype=dtypes)"
|
| 91 |
+
]
|
| 92 |
+
},
|
| 93 |
+
{
|
| 94 |
+
"cell_type": "code",
|
| 95 |
+
"execution_count": 11,
|
| 96 |
+
"id": "a4b381c0-968b-4248-a24f-9609acb12136",
|
| 97 |
+
"metadata": {},
|
| 98 |
+
"outputs": [
|
| 99 |
+
{
|
| 100 |
+
"data": {
|
| 101 |
+
"text/plain": [
|
| 102 |
+
"0.04789522637942933"
|
| 103 |
+
]
|
| 104 |
+
},
|
| 105 |
+
"execution_count": 11,
|
| 106 |
+
"metadata": {},
|
| 107 |
+
"output_type": "execute_result"
|
| 108 |
+
}
|
| 109 |
+
],
|
| 110 |
+
"source": [
|
| 111 |
+
"len(ddf[~ddf['BindingDB Target Chain Sequence.1'].isnull()])/len(ddf[~ddf['BindingDB Target Chain Sequence'].isnull()])"
|
| 112 |
+
]
|
| 113 |
+
},
|
| 114 |
+
{
|
| 115 |
+
"cell_type": "code",
|
| 116 |
+
"execution_count": 18,
|
| 117 |
+
"id": "7a8efd3f-c9c4-4f6a-83e5-9e9610deb17f",
|
| 118 |
+
"metadata": {},
|
| 119 |
+
"outputs": [],
|
| 120 |
+
"source": [
|
| 121 |
+
"# remove rows with more than one target\n",
|
| 122 |
+
"ddf_prune = ddf[ddf['BindingDB Target Chain Sequence.1'].isnull()]\n",
|
| 123 |
+
"ddf_prune = ddf_prune.rename(columns={'BindingDB Target Chain Sequence': 'seq'})"
|
| 124 |
+
]
|
| 125 |
+
},
|
| 126 |
+
{
|
| 127 |
+
"cell_type": "code",
|
| 128 |
+
"execution_count": 19,
|
| 129 |
+
"id": "c00102b8-f4be-4ebd-8d30-7a2c7fc2d05e",
|
| 130 |
+
"metadata": {},
|
| 131 |
+
"outputs": [],
|
| 132 |
+
"source": [
|
| 133 |
+
"ddf_nonnull = ddf_prune[~ddf_prune.seq.isnull()].copy()"
|
| 134 |
+
]
|
| 135 |
+
},
|
| 136 |
+
{
|
| 137 |
+
"cell_type": "code",
|
| 138 |
+
"execution_count": 20,
|
| 139 |
+
"id": "c5337e06-1e45-4180-90ed-49ac9ecdd24a",
|
| 140 |
+
"metadata": {},
|
| 141 |
+
"outputs": [
|
| 142 |
+
{
|
| 143 |
+
"data": {
|
| 144 |
+
"text/html": [
|
| 145 |
+
"<div>\n",
|
| 146 |
+
"<style scoped>\n",
|
| 147 |
+
" .dataframe tbody tr th:only-of-type {\n",
|
| 148 |
+
" vertical-align: middle;\n",
|
| 149 |
+
" }\n",
|
| 150 |
+
"\n",
|
| 151 |
+
" .dataframe tbody tr th {\n",
|
| 152 |
+
" vertical-align: top;\n",
|
| 153 |
+
" }\n",
|
| 154 |
+
"\n",
|
| 155 |
+
" .dataframe thead th {\n",
|
| 156 |
+
" text-align: right;\n",
|
| 157 |
+
" }\n",
|
| 158 |
+
"</style>\n",
|
| 159 |
+
"<table border=\"1\" class=\"dataframe\">\n",
|
| 160 |
+
" <thead>\n",
|
| 161 |
+
" <tr style=\"text-align: right;\">\n",
|
| 162 |
+
" <th></th>\n",
|
| 163 |
+
" <th>Ligand SMILES</th>\n",
|
| 164 |
+
" <th>Ki (nM)</th>\n",
|
| 165 |
+
" <th>IC50 (nM)</th>\n",
|
| 166 |
+
" <th>Kd (nM)</th>\n",
|
| 167 |
+
" <th>EC50 (nM)</th>\n",
|
| 168 |
+
" <th>KEGG ID of Ligand</th>\n",
|
| 169 |
+
" <th>seq</th>\n",
|
| 170 |
+
" <th>BindingDB Target Chain Sequence.1</th>\n",
|
| 171 |
+
" <th>BindingDB Target Chain Sequence.2</th>\n",
|
| 172 |
+
" <th>BindingDB Target Chain Sequence.3</th>\n",
|
| 173 |
+
" <th>BindingDB Target Chain Sequence.4</th>\n",
|
| 174 |
+
" <th>BindingDB Target Chain Sequence.5</th>\n",
|
| 175 |
+
" <th>BindingDB Target Chain Sequence.6</th>\n",
|
| 176 |
+
" <th>BindingDB Target Chain Sequence.7</th>\n",
|
| 177 |
+
" <th>BindingDB Target Chain Sequence.8</th>\n",
|
| 178 |
+
" <th>BindingDB Target Chain Sequence.9</th>\n",
|
| 179 |
+
" <th>BindingDB Target Chain Sequence.10</th>\n",
|
| 180 |
+
" <th>BindingDB Target Chain Sequence.11</th>\n",
|
| 181 |
+
" <th>BindingDB Target Chain Sequence.12</th>\n",
|
| 182 |
+
" </tr>\n",
|
| 183 |
+
" </thead>\n",
|
| 184 |
+
" <tbody>\n",
|
| 185 |
+
" <tr>\n",
|
| 186 |
+
" <th>0</th>\n",
|
| 187 |
+
" <td>COc1cc2c(Nc3ccc(Br)cc3F)ncnc2cc1OCC1CCN(C)CC1</td>\n",
|
| 188 |
+
" <td>0.24</td>\n",
|
| 189 |
+
" <td>NaN</td>\n",
|
| 190 |
+
" <td>NaN</td>\n",
|
| 191 |
+
" <td>NaN</td>\n",
|
| 192 |
+
" <td>NaN</td>\n",
|
| 193 |
+
" <td>PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMSLPGRWKPKM...</td>\n",
|
| 194 |
+
" <td>NaN</td>\n",
|
| 195 |
+
" <td>NaN</td>\n",
|
| 196 |
+
" <td>NaN</td>\n",
|
| 197 |
+
" <td>NaN</td>\n",
|
| 198 |
+
" <td>NaN</td>\n",
|
| 199 |
+
" <td>NaN</td>\n",
|
| 200 |
+
" <td>NaN</td>\n",
|
| 201 |
+
" <td>NaN</td>\n",
|
| 202 |
+
" <td>NaN</td>\n",
|
| 203 |
+
" <td>NaN</td>\n",
|
| 204 |
+
" <td>NaN</td>\n",
|
| 205 |
+
" <td>NaN</td>\n",
|
| 206 |
+
" </tr>\n",
|
| 207 |
+
" <tr>\n",
|
| 208 |
+
" <th>1</th>\n",
|
| 209 |
+
" <td>O[C@@H]1[C@@H](O)[C@@H](Cc2ccccc2)N(C\\C=C\\c2cn...</td>\n",
|
| 210 |
+
" <td>0.25</td>\n",
|
| 211 |
+
" <td>NaN</td>\n",
|
| 212 |
+
" <td>NaN</td>\n",
|
| 213 |
+
" <td>NaN</td>\n",
|
| 214 |
+
" <td>NaN</td>\n",
|
| 215 |
+
" <td>PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMSLPGRWKPKM...</td>\n",
|
| 216 |
+
" <td>NaN</td>\n",
|
| 217 |
+
" <td>NaN</td>\n",
|
| 218 |
+
" <td>NaN</td>\n",
|
| 219 |
+
" <td>NaN</td>\n",
|
| 220 |
+
" <td>NaN</td>\n",
|
| 221 |
+
" <td>NaN</td>\n",
|
| 222 |
+
" <td>NaN</td>\n",
|
| 223 |
+
" <td>NaN</td>\n",
|
| 224 |
+
" <td>NaN</td>\n",
|
| 225 |
+
" <td>NaN</td>\n",
|
| 226 |
+
" <td>NaN</td>\n",
|
| 227 |
+
" <td>NaN</td>\n",
|
| 228 |
+
" </tr>\n",
|
| 229 |
+
" <tr>\n",
|
| 230 |
+
" <th>2</th>\n",
|
| 231 |
+
" <td>O[C@@H]1[C@@H](O)[C@@H](Cc2ccccc2)N(CC2CC2)C(=...</td>\n",
|
| 232 |
+
" <td>0.41</td>\n",
|
| 233 |
+
" <td>NaN</td>\n",
|
| 234 |
+
" <td>NaN</td>\n",
|
| 235 |
+
" <td>NaN</td>\n",
|
| 236 |
+
" <td>NaN</td>\n",
|
| 237 |
+
" <td>PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMSLPGRWKPKM...</td>\n",
|
| 238 |
+
" <td>NaN</td>\n",
|
| 239 |
+
" <td>NaN</td>\n",
|
| 240 |
+
" <td>NaN</td>\n",
|
| 241 |
+
" <td>NaN</td>\n",
|
| 242 |
+
" <td>NaN</td>\n",
|
| 243 |
+
" <td>NaN</td>\n",
|
| 244 |
+
" <td>NaN</td>\n",
|
| 245 |
+
" <td>NaN</td>\n",
|
| 246 |
+
" <td>NaN</td>\n",
|
| 247 |
+
" <td>NaN</td>\n",
|
| 248 |
+
" <td>NaN</td>\n",
|
| 249 |
+
" <td>NaN</td>\n",
|
| 250 |
+
" </tr>\n",
|
| 251 |
+
" <tr>\n",
|
| 252 |
+
" <th>3</th>\n",
|
| 253 |
+
" <td>OCCCCCCN1[C@H](Cc2ccccc2)[C@H](O)[C@@H](O)[C@@...</td>\n",
|
| 254 |
+
" <td>0.8</td>\n",
|
| 255 |
+
" <td>NaN</td>\n",
|
| 256 |
+
" <td>NaN</td>\n",
|
| 257 |
+
" <td>NaN</td>\n",
|
| 258 |
+
" <td>NaN</td>\n",
|
| 259 |
+
" <td>PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMSLPGRWKPKM...</td>\n",
|
| 260 |
+
" <td>NaN</td>\n",
|
| 261 |
+
" <td>NaN</td>\n",
|
| 262 |
+
" <td>NaN</td>\n",
|
| 263 |
+
" <td>NaN</td>\n",
|
| 264 |
+
" <td>NaN</td>\n",
|
| 265 |
+
" <td>NaN</td>\n",
|
| 266 |
+
" <td>NaN</td>\n",
|
| 267 |
+
" <td>NaN</td>\n",
|
| 268 |
+
" <td>NaN</td>\n",
|
| 269 |
+
" <td>NaN</td>\n",
|
| 270 |
+
" <td>NaN</td>\n",
|
| 271 |
+
" <td>NaN</td>\n",
|
| 272 |
+
" </tr>\n",
|
| 273 |
+
" <tr>\n",
|
| 274 |
+
" <th>4</th>\n",
|
| 275 |
+
" <td>OCCCCCN1[C@H](Cc2ccccc2)[C@H](O)[C@@H](O)[C@@H...</td>\n",
|
| 276 |
+
" <td>0.99</td>\n",
|
| 277 |
+
" <td>NaN</td>\n",
|
| 278 |
+
" <td>NaN</td>\n",
|
| 279 |
+
" <td>NaN</td>\n",
|
| 280 |
+
" <td>NaN</td>\n",
|
| 281 |
+
" <td>PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMSLPGRWKPKM...</td>\n",
|
| 282 |
+
" <td>NaN</td>\n",
|
| 283 |
+
" <td>NaN</td>\n",
|
| 284 |
+
" <td>NaN</td>\n",
|
| 285 |
+
" <td>NaN</td>\n",
|
| 286 |
+
" <td>NaN</td>\n",
|
| 287 |
+
" <td>NaN</td>\n",
|
| 288 |
+
" <td>NaN</td>\n",
|
| 289 |
+
" <td>NaN</td>\n",
|
| 290 |
+
" <td>NaN</td>\n",
|
| 291 |
+
" <td>NaN</td>\n",
|
| 292 |
+
" <td>NaN</td>\n",
|
| 293 |
+
" <td>NaN</td>\n",
|
| 294 |
+
" </tr>\n",
|
| 295 |
+
" </tbody>\n",
|
| 296 |
+
"</table>\n",
|
| 297 |
+
"</div>"
|
| 298 |
+
],
|
| 299 |
+
"text/plain": [
|
| 300 |
+
" Ligand SMILES Ki (nM) IC50 (nM) \\\n",
|
| 301 |
+
"0 COc1cc2c(Nc3ccc(Br)cc3F)ncnc2cc1OCC1CCN(C)CC1 0.24 NaN \n",
|
| 302 |
+
"1 O[C@@H]1[C@@H](O)[C@@H](Cc2ccccc2)N(C\\C=C\\c2cn... 0.25 NaN \n",
|
| 303 |
+
"2 O[C@@H]1[C@@H](O)[C@@H](Cc2ccccc2)N(CC2CC2)C(=... 0.41 NaN \n",
|
| 304 |
+
"3 OCCCCCCN1[C@H](Cc2ccccc2)[C@H](O)[C@@H](O)[C@@... 0.8 NaN \n",
|
| 305 |
+
"4 OCCCCCN1[C@H](Cc2ccccc2)[C@H](O)[C@@H](O)[C@@H... 0.99 NaN \n",
|
| 306 |
+
"\n",
|
| 307 |
+
" Kd (nM) EC50 (nM) KEGG ID of Ligand \\\n",
|
| 308 |
+
"0 NaN NaN NaN \n",
|
| 309 |
+
"1 NaN NaN NaN \n",
|
| 310 |
+
"2 NaN NaN NaN \n",
|
| 311 |
+
"3 NaN NaN NaN \n",
|
| 312 |
+
"4 NaN NaN NaN \n",
|
| 313 |
+
"\n",
|
| 314 |
+
" seq \\\n",
|
| 315 |
+
"0 PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMSLPGRWKPKM... \n",
|
| 316 |
+
"1 PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMSLPGRWKPKM... \n",
|
| 317 |
+
"2 PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMSLPGRWKPKM... \n",
|
| 318 |
+
"3 PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMSLPGRWKPKM... \n",
|
| 319 |
+
"4 PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMSLPGRWKPKM... \n",
|
| 320 |
+
"\n",
|
| 321 |
+
" BindingDB Target Chain Sequence.1 BindingDB Target Chain Sequence.2 \\\n",
|
| 322 |
+
"0 NaN NaN \n",
|
| 323 |
+
"1 NaN NaN \n",
|
| 324 |
+
"2 NaN NaN \n",
|
| 325 |
+
"3 NaN NaN \n",
|
| 326 |
+
"4 NaN NaN \n",
|
| 327 |
+
"\n",
|
| 328 |
+
" BindingDB Target Chain Sequence.3 BindingDB Target Chain Sequence.4 \\\n",
|
| 329 |
+
"0 NaN NaN \n",
|
| 330 |
+
"1 NaN NaN \n",
|
| 331 |
+
"2 NaN NaN \n",
|
| 332 |
+
"3 NaN NaN \n",
|
| 333 |
+
"4 NaN NaN \n",
|
| 334 |
+
"\n",
|
| 335 |
+
" BindingDB Target Chain Sequence.5 BindingDB Target Chain Sequence.6 \\\n",
|
| 336 |
+
"0 NaN NaN \n",
|
| 337 |
+
"1 NaN NaN \n",
|
| 338 |
+
"2 NaN NaN \n",
|
| 339 |
+
"3 NaN NaN \n",
|
| 340 |
+
"4 NaN NaN \n",
|
| 341 |
+
"\n",
|
| 342 |
+
" BindingDB Target Chain Sequence.7 BindingDB Target Chain Sequence.8 \\\n",
|
| 343 |
+
"0 NaN NaN \n",
|
| 344 |
+
"1 NaN NaN \n",
|
| 345 |
+
"2 NaN NaN \n",
|
| 346 |
+
"3 NaN NaN \n",
|
| 347 |
+
"4 NaN NaN \n",
|
| 348 |
+
"\n",
|
| 349 |
+
" BindingDB Target Chain Sequence.9 BindingDB Target Chain Sequence.10 \\\n",
|
| 350 |
+
"0 NaN NaN \n",
|
| 351 |
+
"1 NaN NaN \n",
|
| 352 |
+
"2 NaN NaN \n",
|
| 353 |
+
"3 NaN NaN \n",
|
| 354 |
+
"4 NaN NaN \n",
|
| 355 |
+
"\n",
|
| 356 |
+
" BindingDB Target Chain Sequence.11 BindingDB Target Chain Sequence.12 \n",
|
| 357 |
+
"0 NaN NaN \n",
|
| 358 |
+
"1 NaN NaN \n",
|
| 359 |
+
"2 NaN NaN \n",
|
| 360 |
+
"3 NaN NaN \n",
|
| 361 |
+
"4 NaN NaN "
|
| 362 |
+
]
|
| 363 |
+
},
|
| 364 |
+
"execution_count": 20,
|
| 365 |
+
"metadata": {},
|
| 366 |
+
"output_type": "execute_result"
|
| 367 |
+
}
|
| 368 |
+
],
|
| 369 |
+
"source": [
|
| 370 |
+
"ddf_nonnull.head()"
|
| 371 |
+
]
|
| 372 |
+
},
|
| 373 |
+
{
|
| 374 |
+
"cell_type": "code",
|
| 375 |
+
"execution_count": 21,
|
| 376 |
+
"id": "7b423365-4989-4325-a5a5-845d852d52e9",
|
| 377 |
+
"metadata": {},
|
| 378 |
+
"outputs": [
|
| 379 |
+
{
|
| 380 |
+
"data": {
|
| 381 |
+
"text/plain": [
|
| 382 |
+
"2221761"
|
| 383 |
+
]
|
| 384 |
+
},
|
| 385 |
+
"execution_count": 21,
|
| 386 |
+
"metadata": {},
|
| 387 |
+
"output_type": "execute_result"
|
| 388 |
+
}
|
| 389 |
+
],
|
| 390 |
+
"source": [
|
| 391 |
+
"len(ddf_nonnull)"
|
| 392 |
+
]
|
| 393 |
+
},
|
| 394 |
+
{
|
| 395 |
+
"cell_type": "code",
|
| 396 |
+
"execution_count": 22,
|
| 397 |
+
"id": "872edb84-3459-43d9-8e0e-e2a6b5d281eb",
|
| 398 |
+
"metadata": {},
|
| 399 |
+
"outputs": [],
|
| 400 |
+
"source": [
|
| 401 |
+
"from pint import UnitRegistry\n",
|
| 402 |
+
"import numpy as np\n",
|
| 403 |
+
"import re\n",
|
| 404 |
+
"ureg = UnitRegistry()\n",
|
| 405 |
+
"\n",
|
| 406 |
+
"def to_uM(affinities):\n",
|
| 407 |
+
" ic50, Ki, Kd, ec50 = affinities\n",
|
| 408 |
+
"\n",
|
| 409 |
+
" vals = []\n",
|
| 410 |
+
" \n",
|
| 411 |
+
" try:\n",
|
| 412 |
+
" ic50 = ureg(str(ic50)+'nM').m_as(ureg.uM)\n",
|
| 413 |
+
" vals.append(ic50)\n",
|
| 414 |
+
" except:\n",
|
| 415 |
+
" pass\n",
|
| 416 |
+
"\n",
|
| 417 |
+
" try:\n",
|
| 418 |
+
" Ki = ureg(str(Ki)+'nM').m_as(ureg.uM)\n",
|
| 419 |
+
" vals.append(Ki)\n",
|
| 420 |
+
" except:\n",
|
| 421 |
+
" pass\n",
|
| 422 |
+
"\n",
|
| 423 |
+
" try:\n",
|
| 424 |
+
" Kd = ureg(str(Kd)+'nM').m_as(ureg.uM)\n",
|
| 425 |
+
" vals.append(Kd)\n",
|
| 426 |
+
" except:\n",
|
| 427 |
+
" pass\n",
|
| 428 |
+
"\n",
|
| 429 |
+
" try:\n",
|
| 430 |
+
" ec50 = ureg(str(ec50)+'nM').m_as(ureg.uM)\n",
|
| 431 |
+
" vals.append(ec50)\n",
|
| 432 |
+
" except:\n",
|
| 433 |
+
" pass\n",
|
| 434 |
+
"\n",
|
| 435 |
+
" if len(vals) > 0:\n",
|
| 436 |
+
" vals = np.array(vals)\n",
|
| 437 |
+
" return np.mean(vals[~np.isnan(vals)])\n",
|
| 438 |
+
" \n",
|
| 439 |
+
" return None"
|
| 440 |
+
]
|
| 441 |
+
},
|
| 442 |
+
{
|
| 443 |
+
"cell_type": "code",
|
| 444 |
+
"execution_count": 23,
|
| 445 |
+
"id": "b3cff13c-19b2-4413-a84b-d99062f516a7",
|
| 446 |
+
"metadata": {},
|
| 447 |
+
"outputs": [],
|
| 448 |
+
"source": [
|
| 449 |
+
"df_nonnull = ddf_nonnull.compute()"
|
| 450 |
+
]
|
| 451 |
+
},
|
| 452 |
+
{
|
| 453 |
+
"cell_type": "code",
|
| 454 |
+
"execution_count": 24,
|
| 455 |
+
"id": "ca9795de-e821-4dc3-a7bf-70ade9e4c7f0",
|
| 456 |
+
"metadata": {},
|
| 457 |
+
"outputs": [
|
| 458 |
+
{
|
| 459 |
+
"name": "stdout",
|
| 460 |
+
"output_type": "stream",
|
| 461 |
+
"text": [
|
| 462 |
+
"INFO: Pandarallel will run on 32 workers.\n",
|
| 463 |
+
"INFO: Pandarallel will use Memory file system to transfer data between the main process and workers.\n"
|
| 464 |
+
]
|
| 465 |
+
}
|
| 466 |
+
],
|
| 467 |
+
"source": [
|
| 468 |
+
"from pandarallel import pandarallel\n",
|
| 469 |
+
"pandarallel.initialize()\n"
|
| 470 |
+
]
|
| 471 |
+
},
|
| 472 |
+
{
|
| 473 |
+
"cell_type": "code",
|
| 474 |
+
"execution_count": 25,
|
| 475 |
+
"id": "4356a3e2-fede-48e7-a486-343661fe0a0a",
|
| 476 |
+
"metadata": {},
|
| 477 |
+
"outputs": [],
|
| 478 |
+
"source": [
|
| 479 |
+
"df_affinity = df_nonnull.copy()\n",
|
| 480 |
+
"df_affinity['affinity_uM'] = df_affinity[['IC50 (nM)', 'Ki (nM)', 'Kd (nM)','EC50 (nM)']].parallel_apply(to_uM,axis=1)"
|
| 481 |
+
]
|
| 482 |
+
},
|
| 483 |
+
{
|
| 484 |
+
"cell_type": "code",
|
| 485 |
+
"execution_count": 26,
|
| 486 |
+
"id": "e91c3af8-84a5-42a2-9e25-49cb2f320b0b",
|
| 487 |
+
"metadata": {},
|
| 488 |
+
"outputs": [],
|
| 489 |
+
"source": [
|
| 490 |
+
"df_affinity[~df_affinity['affinity_uM'].isnull()].to_parquet('data/bindingdb.parquet')"
|
| 491 |
+
]
|
| 492 |
+
},
|
| 493 |
+
{
|
| 494 |
+
"cell_type": "code",
|
| 495 |
+
"execution_count": 27,
|
| 496 |
+
"id": "f3a9173e-d574-4314-9cea-f8c0a66766c0",
|
| 497 |
+
"metadata": {},
|
| 498 |
+
"outputs": [],
|
| 499 |
+
"source": [
|
| 500 |
+
"import pandas as pd\n",
|
| 501 |
+
"df_affinity = pd.read_parquet('data/bindingdb.parquet')"
|
| 502 |
+
]
|
| 503 |
+
},
|
| 504 |
+
{
|
| 505 |
+
"cell_type": "code",
|
| 506 |
+
"execution_count": 28,
|
| 507 |
+
"id": "f602fdbe-7083-436c-9eac-9d97fbc8be67",
|
| 508 |
+
"metadata": {},
|
| 509 |
+
"outputs": [
|
| 510 |
+
{
|
| 511 |
+
"data": {
|
| 512 |
+
"text/plain": [
|
| 513 |
+
"2219812"
|
| 514 |
+
]
|
| 515 |
+
},
|
| 516 |
+
"execution_count": 28,
|
| 517 |
+
"metadata": {},
|
| 518 |
+
"output_type": "execute_result"
|
| 519 |
+
}
|
| 520 |
+
],
|
| 521 |
+
"source": [
|
| 522 |
+
"len(df_affinity)"
|
| 523 |
+
]
|
| 524 |
+
},
|
| 525 |
+
{
|
| 526 |
+
"cell_type": "code",
|
| 527 |
+
"execution_count": 29,
|
| 528 |
+
"id": "27194288-cf3e-4c30-ad55-3b0998fdf939",
|
| 529 |
+
"metadata": {},
|
| 530 |
+
"outputs": [
|
| 531 |
+
{
|
| 532 |
+
"data": {
|
| 533 |
+
"text/html": [
|
| 534 |
+
"<div>\n",
|
| 535 |
+
"<style scoped>\n",
|
| 536 |
+
" .dataframe tbody tr th:only-of-type {\n",
|
| 537 |
+
" vertical-align: middle;\n",
|
| 538 |
+
" }\n",
|
| 539 |
+
"\n",
|
| 540 |
+
" .dataframe tbody tr th {\n",
|
| 541 |
+
" vertical-align: top;\n",
|
| 542 |
+
" }\n",
|
| 543 |
+
"\n",
|
| 544 |
+
" .dataframe thead th {\n",
|
| 545 |
+
" text-align: right;\n",
|
| 546 |
+
" }\n",
|
| 547 |
+
"</style>\n",
|
| 548 |
+
"<table border=\"1\" class=\"dataframe\">\n",
|
| 549 |
+
" <thead>\n",
|
| 550 |
+
" <tr style=\"text-align: right;\">\n",
|
| 551 |
+
" <th></th>\n",
|
| 552 |
+
" <th>Ligand SMILES</th>\n",
|
| 553 |
+
" <th>Ki (nM)</th>\n",
|
| 554 |
+
" <th>IC50 (nM)</th>\n",
|
| 555 |
+
" <th>Kd (nM)</th>\n",
|
| 556 |
+
" <th>EC50 (nM)</th>\n",
|
| 557 |
+
" <th>KEGG ID of Ligand</th>\n",
|
| 558 |
+
" <th>seq</th>\n",
|
| 559 |
+
" <th>BindingDB Target Chain Sequence.1</th>\n",
|
| 560 |
+
" <th>BindingDB Target Chain Sequence.2</th>\n",
|
| 561 |
+
" <th>BindingDB Target Chain Sequence.3</th>\n",
|
| 562 |
+
" <th>BindingDB Target Chain Sequence.4</th>\n",
|
| 563 |
+
" <th>BindingDB Target Chain Sequence.5</th>\n",
|
| 564 |
+
" <th>BindingDB Target Chain Sequence.6</th>\n",
|
| 565 |
+
" <th>BindingDB Target Chain Sequence.7</th>\n",
|
| 566 |
+
" <th>BindingDB Target Chain Sequence.8</th>\n",
|
| 567 |
+
" <th>BindingDB Target Chain Sequence.9</th>\n",
|
| 568 |
+
" <th>BindingDB Target Chain Sequence.10</th>\n",
|
| 569 |
+
" <th>BindingDB Target Chain Sequence.11</th>\n",
|
| 570 |
+
" <th>BindingDB Target Chain Sequence.12</th>\n",
|
| 571 |
+
" <th>affinity_uM</th>\n",
|
| 572 |
+
" </tr>\n",
|
| 573 |
+
" </thead>\n",
|
| 574 |
+
" <tbody>\n",
|
| 575 |
+
" <tr>\n",
|
| 576 |
+
" <th>0</th>\n",
|
| 577 |
+
" <td>COc1cc2c(Nc3ccc(Br)cc3F)ncnc2cc1OCC1CCN(C)CC1</td>\n",
|
| 578 |
+
" <td>0.24</td>\n",
|
| 579 |
+
" <td>None</td>\n",
|
| 580 |
+
" <td>None</td>\n",
|
| 581 |
+
" <td>None</td>\n",
|
| 582 |
+
" <td>None</td>\n",
|
| 583 |
+
" <td>PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMSLPGRWKPKM...</td>\n",
|
| 584 |
+
" <td>None</td>\n",
|
| 585 |
+
" <td>None</td>\n",
|
| 586 |
+
" <td>None</td>\n",
|
| 587 |
+
" <td>None</td>\n",
|
| 588 |
+
" <td>None</td>\n",
|
| 589 |
+
" <td>None</td>\n",
|
| 590 |
+
" <td>None</td>\n",
|
| 591 |
+
" <td>None</td>\n",
|
| 592 |
+
" <td>None</td>\n",
|
| 593 |
+
" <td>None</td>\n",
|
| 594 |
+
" <td>None</td>\n",
|
| 595 |
+
" <td>None</td>\n",
|
| 596 |
+
" <td>0.00024</td>\n",
|
| 597 |
+
" </tr>\n",
|
| 598 |
+
" <tr>\n",
|
| 599 |
+
" <th>1</th>\n",
|
| 600 |
+
" <td>O[C@@H]1[C@@H](O)[C@@H](Cc2ccccc2)N(C\\C=C\\c2cn...</td>\n",
|
| 601 |
+
" <td>0.25</td>\n",
|
| 602 |
+
" <td>None</td>\n",
|
| 603 |
+
" <td>None</td>\n",
|
| 604 |
+
" <td>None</td>\n",
|
| 605 |
+
" <td>None</td>\n",
|
| 606 |
+
" <td>PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMSLPGRWKPKM...</td>\n",
|
| 607 |
+
" <td>None</td>\n",
|
| 608 |
+
" <td>None</td>\n",
|
| 609 |
+
" <td>None</td>\n",
|
| 610 |
+
" <td>None</td>\n",
|
| 611 |
+
" <td>None</td>\n",
|
| 612 |
+
" <td>None</td>\n",
|
| 613 |
+
" <td>None</td>\n",
|
| 614 |
+
" <td>None</td>\n",
|
| 615 |
+
" <td>None</td>\n",
|
| 616 |
+
" <td>None</td>\n",
|
| 617 |
+
" <td>None</td>\n",
|
| 618 |
+
" <td>None</td>\n",
|
| 619 |
+
" <td>0.00025</td>\n",
|
| 620 |
+
" </tr>\n",
|
| 621 |
+
" <tr>\n",
|
| 622 |
+
" <th>2</th>\n",
|
| 623 |
+
" <td>O[C@@H]1[C@@H](O)[C@@H](Cc2ccccc2)N(CC2CC2)C(=...</td>\n",
|
| 624 |
+
" <td>0.41</td>\n",
|
| 625 |
+
" <td>None</td>\n",
|
| 626 |
+
" <td>None</td>\n",
|
| 627 |
+
" <td>None</td>\n",
|
| 628 |
+
" <td>None</td>\n",
|
| 629 |
+
" <td>PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMSLPGRWKPKM...</td>\n",
|
| 630 |
+
" <td>None</td>\n",
|
| 631 |
+
" <td>None</td>\n",
|
| 632 |
+
" <td>None</td>\n",
|
| 633 |
+
" <td>None</td>\n",
|
| 634 |
+
" <td>None</td>\n",
|
| 635 |
+
" <td>None</td>\n",
|
| 636 |
+
" <td>None</td>\n",
|
| 637 |
+
" <td>None</td>\n",
|
| 638 |
+
" <td>None</td>\n",
|
| 639 |
+
" <td>None</td>\n",
|
| 640 |
+
" <td>None</td>\n",
|
| 641 |
+
" <td>None</td>\n",
|
| 642 |
+
" <td>0.00041</td>\n",
|
| 643 |
+
" </tr>\n",
|
| 644 |
+
" <tr>\n",
|
| 645 |
+
" <th>3</th>\n",
|
| 646 |
+
" <td>OCCCCCCN1[C@H](Cc2ccccc2)[C@H](O)[C@@H](O)[C@@...</td>\n",
|
| 647 |
+
" <td>0.8</td>\n",
|
| 648 |
+
" <td>None</td>\n",
|
| 649 |
+
" <td>None</td>\n",
|
| 650 |
+
" <td>None</td>\n",
|
| 651 |
+
" <td>None</td>\n",
|
| 652 |
+
" <td>PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMSLPGRWKPKM...</td>\n",
|
| 653 |
+
" <td>None</td>\n",
|
| 654 |
+
" <td>None</td>\n",
|
| 655 |
+
" <td>None</td>\n",
|
| 656 |
+
" <td>None</td>\n",
|
| 657 |
+
" <td>None</td>\n",
|
| 658 |
+
" <td>None</td>\n",
|
| 659 |
+
" <td>None</td>\n",
|
| 660 |
+
" <td>None</td>\n",
|
| 661 |
+
" <td>None</td>\n",
|
| 662 |
+
" <td>None</td>\n",
|
| 663 |
+
" <td>None</td>\n",
|
| 664 |
+
" <td>None</td>\n",
|
| 665 |
+
" <td>0.00080</td>\n",
|
| 666 |
+
" </tr>\n",
|
| 667 |
+
" <tr>\n",
|
| 668 |
+
" <th>4</th>\n",
|
| 669 |
+
" <td>OCCCCCN1[C@H](Cc2ccccc2)[C@H](O)[C@@H](O)[C@@H...</td>\n",
|
| 670 |
+
" <td>0.99</td>\n",
|
| 671 |
+
" <td>None</td>\n",
|
| 672 |
+
" <td>None</td>\n",
|
| 673 |
+
" <td>None</td>\n",
|
| 674 |
+
" <td>None</td>\n",
|
| 675 |
+
" <td>PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMSLPGRWKPKM...</td>\n",
|
| 676 |
+
" <td>None</td>\n",
|
| 677 |
+
" <td>None</td>\n",
|
| 678 |
+
" <td>None</td>\n",
|
| 679 |
+
" <td>None</td>\n",
|
| 680 |
+
" <td>None</td>\n",
|
| 681 |
+
" <td>None</td>\n",
|
| 682 |
+
" <td>None</td>\n",
|
| 683 |
+
" <td>None</td>\n",
|
| 684 |
+
" <td>None</td>\n",
|
| 685 |
+
" <td>None</td>\n",
|
| 686 |
+
" <td>None</td>\n",
|
| 687 |
+
" <td>None</td>\n",
|
| 688 |
+
" <td>0.00099</td>\n",
|
| 689 |
+
" </tr>\n",
|
| 690 |
+
" </tbody>\n",
|
| 691 |
+
"</table>\n",
|
| 692 |
+
"</div>"
|
| 693 |
+
],
|
| 694 |
+
"text/plain": [
|
| 695 |
+
" Ligand SMILES Ki (nM) IC50 (nM) \\\n",
|
| 696 |
+
"0 COc1cc2c(Nc3ccc(Br)cc3F)ncnc2cc1OCC1CCN(C)CC1 0.24 None \n",
|
| 697 |
+
"1 O[C@@H]1[C@@H](O)[C@@H](Cc2ccccc2)N(C\\C=C\\c2cn... 0.25 None \n",
|
| 698 |
+
"2 O[C@@H]1[C@@H](O)[C@@H](Cc2ccccc2)N(CC2CC2)C(=... 0.41 None \n",
|
| 699 |
+
"3 OCCCCCCN1[C@H](Cc2ccccc2)[C@H](O)[C@@H](O)[C@@... 0.8 None \n",
|
| 700 |
+
"4 OCCCCCN1[C@H](Cc2ccccc2)[C@H](O)[C@@H](O)[C@@H... 0.99 None \n",
|
| 701 |
+
"\n",
|
| 702 |
+
" Kd (nM) EC50 (nM) KEGG ID of Ligand \\\n",
|
| 703 |
+
"0 None None None \n",
|
| 704 |
+
"1 None None None \n",
|
| 705 |
+
"2 None None None \n",
|
| 706 |
+
"3 None None None \n",
|
| 707 |
+
"4 None None None \n",
|
| 708 |
+
"\n",
|
| 709 |
+
" seq \\\n",
|
| 710 |
+
"0 PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMSLPGRWKPKM... \n",
|
| 711 |
+
"1 PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMSLPGRWKPKM... \n",
|
| 712 |
+
"2 PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMSLPGRWKPKM... \n",
|
| 713 |
+
"3 PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMSLPGRWKPKM... \n",
|
| 714 |
+
"4 PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMSLPGRWKPKM... \n",
|
| 715 |
+
"\n",
|
| 716 |
+
" BindingDB Target Chain Sequence.1 BindingDB Target Chain Sequence.2 \\\n",
|
| 717 |
+
"0 None None \n",
|
| 718 |
+
"1 None None \n",
|
| 719 |
+
"2 None None \n",
|
| 720 |
+
"3 None None \n",
|
| 721 |
+
"4 None None \n",
|
| 722 |
+
"\n",
|
| 723 |
+
" BindingDB Target Chain Sequence.3 BindingDB Target Chain Sequence.4 \\\n",
|
| 724 |
+
"0 None None \n",
|
| 725 |
+
"1 None None \n",
|
| 726 |
+
"2 None None \n",
|
| 727 |
+
"3 None None \n",
|
| 728 |
+
"4 None None \n",
|
| 729 |
+
"\n",
|
| 730 |
+
" BindingDB Target Chain Sequence.5 BindingDB Target Chain Sequence.6 \\\n",
|
| 731 |
+
"0 None None \n",
|
| 732 |
+
"1 None None \n",
|
| 733 |
+
"2 None None \n",
|
| 734 |
+
"3 None None \n",
|
| 735 |
+
"4 None None \n",
|
| 736 |
+
"\n",
|
| 737 |
+
" BindingDB Target Chain Sequence.7 BindingDB Target Chain Sequence.8 \\\n",
|
| 738 |
+
"0 None None \n",
|
| 739 |
+
"1 None None \n",
|
| 740 |
+
"2 None None \n",
|
| 741 |
+
"3 None None \n",
|
| 742 |
+
"4 None None \n",
|
| 743 |
+
"\n",
|
| 744 |
+
" BindingDB Target Chain Sequence.9 BindingDB Target Chain Sequence.10 \\\n",
|
| 745 |
+
"0 None None \n",
|
| 746 |
+
"1 None None \n",
|
| 747 |
+
"2 None None \n",
|
| 748 |
+
"3 None None \n",
|
| 749 |
+
"4 None None \n",
|
| 750 |
+
"\n",
|
| 751 |
+
" BindingDB Target Chain Sequence.11 BindingDB Target Chain Sequence.12 \\\n",
|
| 752 |
+
"0 None None \n",
|
| 753 |
+
"1 None None \n",
|
| 754 |
+
"2 None None \n",
|
| 755 |
+
"3 None None \n",
|
| 756 |
+
"4 None None \n",
|
| 757 |
+
"\n",
|
| 758 |
+
" affinity_uM \n",
|
| 759 |
+
"0 0.00024 \n",
|
| 760 |
+
"1 0.00025 \n",
|
| 761 |
+
"2 0.00041 \n",
|
| 762 |
+
"3 0.00080 \n",
|
| 763 |
+
"4 0.00099 "
|
| 764 |
+
]
|
| 765 |
+
},
|
| 766 |
+
"execution_count": 29,
|
| 767 |
+
"metadata": {},
|
| 768 |
+
"output_type": "execute_result"
|
| 769 |
+
}
|
| 770 |
+
],
|
| 771 |
+
"source": [
|
| 772 |
+
"df_affinity.head()"
|
| 773 |
+
]
|
| 774 |
+
},
|
| 775 |
+
{
|
| 776 |
+
"cell_type": "code",
|
| 777 |
+
"execution_count": 30,
|
| 778 |
+
"id": "603fd298-0aa6-4097-b298-c55db013548c",
|
| 779 |
+
"metadata": {},
|
| 780 |
+
"outputs": [
|
| 781 |
+
{
|
| 782 |
+
"data": {
|
| 783 |
+
"text/plain": [
|
| 784 |
+
"2219812"
|
| 785 |
+
]
|
| 786 |
+
},
|
| 787 |
+
"execution_count": 30,
|
| 788 |
+
"metadata": {},
|
| 789 |
+
"output_type": "execute_result"
|
| 790 |
+
}
|
| 791 |
+
],
|
| 792 |
+
"source": [
|
| 793 |
+
"len(df_affinity)"
|
| 794 |
+
]
|
| 795 |
+
},
|
| 796 |
+
{
|
| 797 |
+
"cell_type": "code",
|
| 798 |
+
"execution_count": 31,
|
| 799 |
+
"id": "d95ad9a9-d4ca-4679-8a33-235fe6e7047f",
|
| 800 |
+
"metadata": {},
|
| 801 |
+
"outputs": [
|
| 802 |
+
{
|
| 803 |
+
"data": {
|
| 804 |
+
"text/plain": [
|
| 805 |
+
"2219812"
|
| 806 |
+
]
|
| 807 |
+
},
|
| 808 |
+
"execution_count": 31,
|
| 809 |
+
"metadata": {},
|
| 810 |
+
"output_type": "execute_result"
|
| 811 |
+
}
|
| 812 |
+
],
|
| 813 |
+
"source": [
|
| 814 |
+
"len(df_affinity[~df_affinity['affinity_uM'].isnull()])"
|
| 815 |
+
]
|
| 816 |
+
},
|
| 817 |
+
{
|
| 818 |
+
"cell_type": "code",
|
| 819 |
+
"execution_count": 25,
|
| 820 |
+
"id": "20690729",
|
| 821 |
+
"metadata": {},
|
| 822 |
+
"outputs": [],
|
| 823 |
+
"source": [
|
| 824 |
+
"import rdkit.Chem as Chem"
|
| 825 |
+
]
|
| 826 |
+
},
|
| 827 |
+
{
|
| 828 |
+
"cell_type": "code",
|
| 829 |
+
"execution_count": 27,
|
| 830 |
+
"id": "48114dcc",
|
| 831 |
+
"metadata": {},
|
| 832 |
+
"outputs": [],
|
| 833 |
+
"source": [
|
| 834 |
+
"df_pdb = df[~df['PDB ID(s) for Ligand-Target Complex'].isnull()][['PDB ID(s) for Ligand-Target Complex','Ligand SMILES']]"
|
| 835 |
+
]
|
| 836 |
+
},
|
| 837 |
+
{
|
| 838 |
+
"cell_type": "code",
|
| 839 |
+
"execution_count": 28,
|
| 840 |
+
"id": "caa0497c",
|
| 841 |
+
"metadata": {},
|
| 842 |
+
"outputs": [],
|
| 843 |
+
"source": [
|
| 844 |
+
"def make_canonical(smi):\n",
|
| 845 |
+
" return Chem.MolToSmiles(Chem.MolFromSmiles(smi))\n",
|
| 846 |
+
"\n",
|
| 847 |
+
"df_pdb['can_smiles'] = df_pdb['Ligand SMILES'].apply(make_canonical)"
|
| 848 |
+
]
|
| 849 |
+
},
|
| 850 |
+
{
|
| 851 |
+
"cell_type": "code",
|
| 852 |
+
"execution_count": 29,
|
| 853 |
+
"id": "e82d64f3",
|
| 854 |
+
"metadata": {},
|
| 855 |
+
"outputs": [
|
| 856 |
+
{
|
| 857 |
+
"data": {
|
| 858 |
+
"text/html": [
|
| 859 |
+
"<div>\n",
|
| 860 |
+
"<style scoped>\n",
|
| 861 |
+
" .dataframe tbody tr th:only-of-type {\n",
|
| 862 |
+
" vertical-align: middle;\n",
|
| 863 |
+
" }\n",
|
| 864 |
+
"\n",
|
| 865 |
+
" .dataframe tbody tr th {\n",
|
| 866 |
+
" vertical-align: top;\n",
|
| 867 |
+
" }\n",
|
| 868 |
+
"\n",
|
| 869 |
+
" .dataframe thead th {\n",
|
| 870 |
+
" text-align: right;\n",
|
| 871 |
+
" }\n",
|
| 872 |
+
"</style>\n",
|
| 873 |
+
"<table border=\"1\" class=\"dataframe\">\n",
|
| 874 |
+
" <thead>\n",
|
| 875 |
+
" <tr style=\"text-align: right;\">\n",
|
| 876 |
+
" <th></th>\n",
|
| 877 |
+
" <th>PDB ID(s) for Ligand-Target Complex</th>\n",
|
| 878 |
+
" <th>Ligand SMILES</th>\n",
|
| 879 |
+
" <th>can_smiles</th>\n",
|
| 880 |
+
" </tr>\n",
|
| 881 |
+
" </thead>\n",
|
| 882 |
+
" <tbody>\n",
|
| 883 |
+
" <tr>\n",
|
| 884 |
+
" <th>0</th>\n",
|
| 885 |
+
" <td>2IVU</td>\n",
|
| 886 |
+
" <td>COc1cc2c(Nc3ccc(Br)cc3F)ncnc2cc1OCC1CCN(C)CC1</td>\n",
|
| 887 |
+
" <td>COc1cc2c(Nc3ccc(Br)cc3F)ncnc2cc1OCC1CCN(C)CC1</td>\n",
|
| 888 |
+
" </tr>\n",
|
| 889 |
+
" <tr>\n",
|
| 890 |
+
" <th>29</th>\n",
|
| 891 |
+
" <td>1HWR</td>\n",
|
| 892 |
+
" <td>O[C@@H]1[C@@H](O)[C@@H](Cc2ccccc2)N(CC=C)C(=O)...</td>\n",
|
| 893 |
+
" <td>C=CCN1C(=O)N(CC=C)[C@H](Cc2ccccc2)[C@H](O)[C@@...</td>\n",
|
| 894 |
+
" </tr>\n",
|
| 895 |
+
" <tr>\n",
|
| 896 |
+
" <th>34</th>\n",
|
| 897 |
+
" <td>6DGY,6DH1,6DH4,6DH7,3O99</td>\n",
|
| 898 |
+
" <td>CC[C@H](C)CN(C[C@@H](O)[C@H](Cc1ccccc1)NC(=O)O...</td>\n",
|
| 899 |
+
" <td>CC[C@H](C)CN(C[C@@H](O)[C@H](Cc1ccccc1)NC(=O)O...</td>\n",
|
| 900 |
+
" </tr>\n",
|
| 901 |
+
" <tr>\n",
|
| 902 |
+
" <th>129</th>\n",
|
| 903 |
+
" <td>1MES,1MEU,1MET,1BVG,1BVE,3JVW,1QBS</td>\n",
|
| 904 |
+
" <td>OCc1ccc(CN2[C@H](Cc3ccccc3)[C@H](O)[C@@H](O)[C...</td>\n",
|
| 905 |
+
" <td>O=C1N(Cc2ccc(CO)cc2)[C@H](Cc2ccccc2)[C@H](O)[C...</td>\n",
|
| 906 |
+
" </tr>\n",
|
| 907 |
+
" <tr>\n",
|
| 908 |
+
" <th>130</th>\n",
|
| 909 |
+
" <td>1MER,1DMP,1RQ9</td>\n",
|
| 910 |
+
" <td>Nc1cccc(CN2[C@H](Cc3ccccc3)[C@H](O)[C@@H](O)[C...</td>\n",
|
| 911 |
+
" <td>Nc1cccc(CN2C(=O)N(Cc3cccc(N)c3)[C@H](Cc3ccccc3...</td>\n",
|
| 912 |
+
" </tr>\n",
|
| 913 |
+
" <tr>\n",
|
| 914 |
+
" <th>...</th>\n",
|
| 915 |
+
" <td>...</td>\n",
|
| 916 |
+
" <td>...</td>\n",
|
| 917 |
+
" <td>...</td>\n",
|
| 918 |
+
" </tr>\n",
|
| 919 |
+
" <tr>\n",
|
| 920 |
+
" <th>2333375</th>\n",
|
| 921 |
+
" <td>1MUI,2RKG,2RKF,1RV7,2Q5K,2O4S,6DJ1,6DJ2,3OGQ,2...</td>\n",
|
| 922 |
+
" <td>CC(C)[C@H](N1CCCNC1=O)C(=O)N[C@H](C[C@H](O)[C@...</td>\n",
|
| 923 |
+
" <td>Cc1cccc(C)c1OCC(=O)N[C@@H](Cc1ccccc1)[C@@H](O)...</td>\n",
|
| 924 |
+
" </tr>\n",
|
| 925 |
+
" <tr>\n",
|
| 926 |
+
" <th>2333376</th>\n",
|
| 927 |
+
" <td>4NPT,4DQH,4DQE,5E5J,3JW2,6OPU,6OPX,2HS2,2HS1,2...</td>\n",
|
| 928 |
+
" <td>CC(C)CN(C[C@@H](O)[C@H](Cc1ccccc1)NC(=O)O[C@H]...</td>\n",
|
| 929 |
+
" <td>CC(C)CN(C[C@@H](O)[C@H](Cc1ccccc1)NC(=O)O[C@H]...</td>\n",
|
| 930 |
+
" </tr>\n",
|
| 931 |
+
" <tr>\n",
|
| 932 |
+
" <th>2333380</th>\n",
|
| 933 |
+
" <td>6EKZ,1DY4,5FUK,6PS5</td>\n",
|
| 934 |
+
" <td>CC(C)NCC(O)COc1cccc2ccccc12</td>\n",
|
| 935 |
+
" <td>CC(C)NCC(O)COc1cccc2ccccc12</td>\n",
|
| 936 |
+
" </tr>\n",
|
| 937 |
+
" <tr>\n",
|
| 938 |
+
" <th>2333384</th>\n",
|
| 939 |
+
" <td>6EKZ,1DY4,5FUK,6PS5</td>\n",
|
| 940 |
+
" <td>CC(C)NCC(O)COc1cccc2ccccc12</td>\n",
|
| 941 |
+
" <td>CC(C)NCC(O)COc1cccc2ccccc12</td>\n",
|
| 942 |
+
" </tr>\n",
|
| 943 |
+
" <tr>\n",
|
| 944 |
+
" <th>2333385</th>\n",
|
| 945 |
+
" <td>6A60,3DCT</td>\n",
|
| 946 |
+
" <td>CC(C)c1onc(c1COc1ccc(\\C=C\\c2cccc(c2)C(O)=O)c(C...</td>\n",
|
| 947 |
+
" <td>CC(C)c1onc(-c2c(Cl)cccc2Cl)c1COc1ccc(/C=C/c2cc...</td>\n",
|
| 948 |
+
" </tr>\n",
|
| 949 |
+
" </tbody>\n",
|
| 950 |
+
"</table>\n",
|
| 951 |
+
"<p>123385 rows × 3 columns</p>\n",
|
| 952 |
+
"</div>"
|
| 953 |
+
],
|
| 954 |
+
"text/plain": [
|
| 955 |
+
" PDB ID(s) for Ligand-Target Complex \\\n",
|
| 956 |
+
"0 2IVU \n",
|
| 957 |
+
"29 1HWR \n",
|
| 958 |
+
"34 6DGY,6DH1,6DH4,6DH7,3O99 \n",
|
| 959 |
+
"129 1MES,1MEU,1MET,1BVG,1BVE,3JVW,1QBS \n",
|
| 960 |
+
"130 1MER,1DMP,1RQ9 \n",
|
| 961 |
+
"... ... \n",
|
| 962 |
+
"2333375 1MUI,2RKG,2RKF,1RV7,2Q5K,2O4S,6DJ1,6DJ2,3OGQ,2... \n",
|
| 963 |
+
"2333376 4NPT,4DQH,4DQE,5E5J,3JW2,6OPU,6OPX,2HS2,2HS1,2... \n",
|
| 964 |
+
"2333380 6EKZ,1DY4,5FUK,6PS5 \n",
|
| 965 |
+
"2333384 6EKZ,1DY4,5FUK,6PS5 \n",
|
| 966 |
+
"2333385 6A60,3DCT \n",
|
| 967 |
+
"\n",
|
| 968 |
+
" Ligand SMILES \\\n",
|
| 969 |
+
"0 COc1cc2c(Nc3ccc(Br)cc3F)ncnc2cc1OCC1CCN(C)CC1 \n",
|
| 970 |
+
"29 O[C@@H]1[C@@H](O)[C@@H](Cc2ccccc2)N(CC=C)C(=O)... \n",
|
| 971 |
+
"34 CC[C@H](C)CN(C[C@@H](O)[C@H](Cc1ccccc1)NC(=O)O... \n",
|
| 972 |
+
"129 OCc1ccc(CN2[C@H](Cc3ccccc3)[C@H](O)[C@@H](O)[C... \n",
|
| 973 |
+
"130 Nc1cccc(CN2[C@H](Cc3ccccc3)[C@H](O)[C@@H](O)[C... \n",
|
| 974 |
+
"... ... \n",
|
| 975 |
+
"2333375 CC(C)[C@H](N1CCCNC1=O)C(=O)N[C@H](C[C@H](O)[C@... \n",
|
| 976 |
+
"2333376 CC(C)CN(C[C@@H](O)[C@H](Cc1ccccc1)NC(=O)O[C@H]... \n",
|
| 977 |
+
"2333380 CC(C)NCC(O)COc1cccc2ccccc12 \n",
|
| 978 |
+
"2333384 CC(C)NCC(O)COc1cccc2ccccc12 \n",
|
| 979 |
+
"2333385 CC(C)c1onc(c1COc1ccc(\\C=C\\c2cccc(c2)C(O)=O)c(C... \n",
|
| 980 |
+
"\n",
|
| 981 |
+
" can_smiles \n",
|
| 982 |
+
"0 COc1cc2c(Nc3ccc(Br)cc3F)ncnc2cc1OCC1CCN(C)CC1 \n",
|
| 983 |
+
"29 C=CCN1C(=O)N(CC=C)[C@H](Cc2ccccc2)[C@H](O)[C@@... \n",
|
| 984 |
+
"34 CC[C@H](C)CN(C[C@@H](O)[C@H](Cc1ccccc1)NC(=O)O... \n",
|
| 985 |
+
"129 O=C1N(Cc2ccc(CO)cc2)[C@H](Cc2ccccc2)[C@H](O)[C... \n",
|
| 986 |
+
"130 Nc1cccc(CN2C(=O)N(Cc3cccc(N)c3)[C@H](Cc3ccccc3... \n",
|
| 987 |
+
"... ... \n",
|
| 988 |
+
"2333375 Cc1cccc(C)c1OCC(=O)N[C@@H](Cc1ccccc1)[C@@H](O)... \n",
|
| 989 |
+
"2333376 CC(C)CN(C[C@@H](O)[C@H](Cc1ccccc1)NC(=O)O[C@H]... \n",
|
| 990 |
+
"2333380 CC(C)NCC(O)COc1cccc2ccccc12 \n",
|
| 991 |
+
"2333384 CC(C)NCC(O)COc1cccc2ccccc12 \n",
|
| 992 |
+
"2333385 CC(C)c1onc(-c2c(Cl)cccc2Cl)c1COc1ccc(/C=C/c2cc... \n",
|
| 993 |
+
"\n",
|
| 994 |
+
"[123385 rows x 3 columns]"
|
| 995 |
+
]
|
| 996 |
+
},
|
| 997 |
+
"execution_count": 29,
|
| 998 |
+
"metadata": {},
|
| 999 |
+
"output_type": "execute_result"
|
| 1000 |
+
}
|
| 1001 |
+
],
|
| 1002 |
+
"source": [
|
| 1003 |
+
"df_pdb"
|
| 1004 |
+
]
|
| 1005 |
+
},
|
| 1006 |
+
{
|
| 1007 |
+
"cell_type": "code",
|
| 1008 |
+
"execution_count": null,
|
| 1009 |
+
"id": "593c9aec",
|
| 1010 |
+
"metadata": {},
|
| 1011 |
+
"outputs": [],
|
| 1012 |
+
"source": []
|
| 1013 |
+
}
|
| 1014 |
+
],
|
| 1015 |
+
"metadata": {
|
| 1016 |
+
"kernelspec": {
|
| 1017 |
+
"display_name": "Python 3",
|
| 1018 |
+
"language": "python",
|
| 1019 |
+
"name": "python3"
|
| 1020 |
+
},
|
| 1021 |
+
"language_info": {
|
| 1022 |
+
"codemirror_mode": {
|
| 1023 |
+
"name": "ipython",
|
| 1024 |
+
"version": 3
|
| 1025 |
+
},
|
| 1026 |
+
"file_extension": ".py",
|
| 1027 |
+
"mimetype": "text/x-python",
|
| 1028 |
+
"name": "python",
|
| 1029 |
+
"nbconvert_exporter": "python",
|
| 1030 |
+
"pygments_lexer": "ipython3",
|
| 1031 |
+
"version": "3.9.4"
|
| 1032 |
+
}
|
| 1033 |
+
},
|
| 1034 |
+
"nbformat": 4,
|
| 1035 |
+
"nbformat_minor": 5
|
| 1036 |
+
}
|
combine_dbs.ipynb
CHANGED
|
@@ -238,7 +238,7 @@
|
|
| 238 |
},
|
| 239 |
{
|
| 240 |
"cell_type": "code",
|
| 241 |
-
"execution_count":
|
| 242 |
"id": "d7bfee2a-c4e6-48c9-b0c6-52f6a69c7453",
|
| 243 |
"metadata": {},
|
| 244 |
"outputs": [],
|
|
@@ -249,7 +249,7 @@
|
|
| 249 |
},
|
| 250 |
{
|
| 251 |
"cell_type": "code",
|
| 252 |
-
"execution_count":
|
| 253 |
"id": "25553199-1715-40fb-9260-427bdd6c3706",
|
| 254 |
"metadata": {},
|
| 255 |
"outputs": [
|
|
@@ -381,7 +381,7 @@
|
|
| 381 |
"[25425 rows x 3 columns]"
|
| 382 |
]
|
| 383 |
},
|
| 384 |
-
"execution_count":
|
| 385 |
"metadata": {},
|
| 386 |
"output_type": "execute_result"
|
| 387 |
}
|
|
@@ -392,7 +392,7 @@
|
|
| 392 |
},
|
| 393 |
{
|
| 394 |
"cell_type": "code",
|
| 395 |
-
"execution_count":
|
| 396 |
"id": "b2c936bc-cdc8-4bc1-b92d-f8755fd65f0a",
|
| 397 |
"metadata": {},
|
| 398 |
"outputs": [],
|
|
@@ -403,7 +403,7 @@
|
|
| 403 |
},
|
| 404 |
{
|
| 405 |
"cell_type": "code",
|
| 406 |
-
"execution_count":
|
| 407 |
"id": "cee93018-601d-458b-af44-bd978da7a2bc",
|
| 408 |
"metadata": {},
|
| 409 |
"outputs": [
|
|
@@ -535,7 +535,7 @@
|
|
| 535 |
"[13645 rows x 3 columns]"
|
| 536 |
]
|
| 537 |
},
|
| 538 |
-
"execution_count":
|
| 539 |
"metadata": {},
|
| 540 |
"output_type": "execute_result"
|
| 541 |
}
|
|
@@ -546,7 +546,7 @@
|
|
| 546 |
},
|
| 547 |
{
|
| 548 |
"cell_type": "code",
|
| 549 |
-
"execution_count":
|
| 550 |
"id": "195f92db-fe06-4d03-8500-8d6c310a3347",
|
| 551 |
"metadata": {},
|
| 552 |
"outputs": [],
|
|
@@ -556,17 +556,17 @@
|
|
| 556 |
},
|
| 557 |
{
|
| 558 |
"cell_type": "code",
|
| 559 |
-
"execution_count":
|
| 560 |
"id": "d25c1e24-6566-4944-a0b4-944b3c8dbc6f",
|
| 561 |
"metadata": {},
|
| 562 |
"outputs": [
|
| 563 |
{
|
| 564 |
"data": {
|
| 565 |
"text/plain": [
|
| 566 |
-
"
|
| 567 |
]
|
| 568 |
},
|
| 569 |
-
"execution_count":
|
| 570 |
"metadata": {},
|
| 571 |
"output_type": "execute_result"
|
| 572 |
}
|
|
@@ -577,7 +577,7 @@
|
|
| 577 |
},
|
| 578 |
{
|
| 579 |
"cell_type": "code",
|
| 580 |
-
"execution_count":
|
| 581 |
"id": "c8287da2-cfdf-4d89-b175-f4c6b38ff8ac",
|
| 582 |
"metadata": {},
|
| 583 |
"outputs": [
|
|
@@ -607,7 +607,7 @@
|
|
| 607 |
},
|
| 608 |
{
|
| 609 |
"cell_type": "code",
|
| 610 |
-
"execution_count":
|
| 611 |
"id": "59a6706d-dab9-4ee0-8ef6-33537a3622a4",
|
| 612 |
"metadata": {},
|
| 613 |
"outputs": [],
|
|
@@ -617,7 +617,7 @@
|
|
| 617 |
},
|
| 618 |
{
|
| 619 |
"cell_type": "code",
|
| 620 |
-
"execution_count":
|
| 621 |
"id": "4ccf2ee5-d369-4c0e-bb91-792765d661bf",
|
| 622 |
"metadata": {},
|
| 623 |
"outputs": [],
|
|
@@ -627,7 +627,28 @@
|
|
| 627 |
},
|
| 628 |
{
|
| 629 |
"cell_type": "code",
|
| 630 |
-
"execution_count":
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| 631 |
"id": "8a4bbb18-e62f-4774-ac6b-8a1be68204c1",
|
| 632 |
"metadata": {},
|
| 633 |
"outputs": [],
|
|
@@ -638,17 +659,17 @@
|
|
| 638 |
},
|
| 639 |
{
|
| 640 |
"cell_type": "code",
|
| 641 |
-
"execution_count":
|
| 642 |
"id": "d210fe56-a7eb-4adc-a77a-14c0c6d0034e",
|
| 643 |
"metadata": {},
|
| 644 |
"outputs": [
|
| 645 |
{
|
| 646 |
"data": {
|
| 647 |
"text/plain": [
|
| 648 |
-
"
|
| 649 |
]
|
| 650 |
},
|
| 651 |
-
"execution_count":
|
| 652 |
"metadata": {},
|
| 653 |
"output_type": "execute_result"
|
| 654 |
}
|
|
@@ -659,7 +680,7 @@
|
|
| 659 |
},
|
| 660 |
{
|
| 661 |
"cell_type": "code",
|
| 662 |
-
"execution_count":
|
| 663 |
"id": "d12b365d-98bd-4b61-b836-1a08d2e55418",
|
| 664 |
"metadata": {},
|
| 665 |
"outputs": [],
|
|
@@ -670,7 +691,7 @@
|
|
| 670 |
},
|
| 671 |
{
|
| 672 |
"cell_type": "code",
|
| 673 |
-
"execution_count":
|
| 674 |
"id": "80c15210-1af3-436e-970b-f81fc596fb41",
|
| 675 |
"metadata": {},
|
| 676 |
"outputs": [],
|
|
@@ -680,7 +701,7 @@
|
|
| 680 |
},
|
| 681 |
{
|
| 682 |
"cell_type": "code",
|
| 683 |
-
"execution_count":
|
| 684 |
"id": "30c314b8-8fe7-48ae-a2b8-149de1471b0c",
|
| 685 |
"metadata": {},
|
| 686 |
"outputs": [
|
|
@@ -696,7 +717,7 @@
|
|
| 696 |
"dtype: object"
|
| 697 |
]
|
| 698 |
},
|
| 699 |
-
"execution_count":
|
| 700 |
"metadata": {},
|
| 701 |
"output_type": "execute_result"
|
| 702 |
}
|
|
@@ -707,7 +728,7 @@
|
|
| 707 |
},
|
| 708 |
{
|
| 709 |
"cell_type": "code",
|
| 710 |
-
"execution_count":
|
| 711 |
"id": "70a0a820-4d0c-4472-af96-9c301c0ab204",
|
| 712 |
"metadata": {},
|
| 713 |
"outputs": [],
|
|
@@ -717,7 +738,7 @@
|
|
| 717 |
},
|
| 718 |
{
|
| 719 |
"cell_type": "code",
|
| 720 |
-
"execution_count":
|
| 721 |
"id": "13d092fa-5625-40d0-b7ec-e3405ea20279",
|
| 722 |
"metadata": {},
|
| 723 |
"outputs": [
|
|
@@ -827,7 +848,7 @@
|
|
| 827 |
" <td>...</td>\n",
|
| 828 |
" </tr>\n",
|
| 829 |
" <tr>\n",
|
| 830 |
-
" <th>
|
| 831 |
" <td>PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWKPKM...</td>\n",
|
| 832 |
" <td>O[C@@H]([C@H](Cc1ccccc1)NC(=O)[C@H](C(C)C)NC(=...</td>\n",
|
| 833 |
" <td>0.0045</td>\n",
|
|
@@ -839,7 +860,7 @@
|
|
| 839 |
" <td>252</td>\n",
|
| 840 |
" </tr>\n",
|
| 841 |
" <tr>\n",
|
| 842 |
-
" <th>
|
| 843 |
" <td>PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWKPKM...</td>\n",
|
| 844 |
" <td>O[C@@H]([C@H](Cc1ccccc1)NC(=O)[C@H](C(C)C)NC(=...</td>\n",
|
| 845 |
" <td>0.0045</td>\n",
|
|
@@ -851,7 +872,7 @@
|
|
| 851 |
" <td>252</td>\n",
|
| 852 |
" </tr>\n",
|
| 853 |
" <tr>\n",
|
| 854 |
-
" <th>
|
| 855 |
" <td>SKVVVPAQGKKITLQNGKLNVPENPIIPYIEGDGIGVDVTPAMLKV...</td>\n",
|
| 856 |
" <td>O[C@@H]1[C@@H](COP(=O)(O)O)O[C@H]([C@@H]1OP(=O...</td>\n",
|
| 857 |
" <td>125.0000</td>\n",
|
|
@@ -863,7 +884,7 @@
|
|
| 863 |
" <td>124</td>\n",
|
| 864 |
" </tr>\n",
|
| 865 |
" <tr>\n",
|
| 866 |
-
" <th>
|
| 867 |
" <td>ANIVGGIEYSINNASLCSVGFSVTRGATKGFVTAGHCGTVNATARI...</td>\n",
|
| 868 |
" <td>CC(C[C@@H](B(O)O)NC(=O)[C@@H]1CCCN1C(=O)[C@@H]...</td>\n",
|
| 869 |
" <td>2.0000</td>\n",
|
|
@@ -875,7 +896,7 @@
|
|
| 875 |
" <td>204</td>\n",
|
| 876 |
" </tr>\n",
|
| 877 |
" <tr>\n",
|
| 878 |
-
" <th>
|
| 879 |
" <td>KFPRVKNWELGSITYDTLCAQSQQDGPCTPRRCLGSLVLPRKLQTR...</td>\n",
|
| 880 |
" <td>CC[Se]C(=N)N</td>\n",
|
| 881 |
" <td>0.0390</td>\n",
|
|
@@ -888,7 +909,7 @@
|
|
| 888 |
" </tr>\n",
|
| 889 |
" </tbody>\n",
|
| 890 |
"</table>\n",
|
| 891 |
-
"<p>
|
| 892 |
"</div>"
|
| 893 |
],
|
| 894 |
"text/plain": [
|
|
@@ -899,11 +920,11 @@
|
|
| 899 |
"3 AAPFDKSKNVAQSIDQLIGQTPALYLNKLNNTKAKVVLKMECENPM... \n",
|
| 900 |
"4 YITFRSFTAVLIAFFLTLVLSPSFINRLRKIQRKKYTPTMGGIVIL... \n",
|
| 901 |
"... ... \n",
|
| 902 |
-
"
|
| 903 |
-
"
|
| 904 |
-
"
|
| 905 |
-
"
|
| 906 |
-
"
|
| 907 |
"\n",
|
| 908 |
" smiles affinity_uM \\\n",
|
| 909 |
"0 CCCCCCCCCCCCCCCCCCCC(=O)O 0.0260 \n",
|
|
@@ -912,11 +933,11 @@
|
|
| 912 |
"3 OC[C@@H](C(=O)N[C@@H]([C@H](CC)C)C(=O)O)NC(=O)... 6.4300 \n",
|
| 913 |
"4 CO[C@@H]1[C@H](O[C@H]([C@@H]1O)n1ccc(=O)[nH]c1... 0.1850 \n",
|
| 914 |
"... ... ... \n",
|
| 915 |
-
"
|
| 916 |
-
"
|
| 917 |
-
"
|
| 918 |
-
"
|
| 919 |
-
"
|
| 920 |
"\n",
|
| 921 |
" 0 1 2 3 4 5 \n",
|
| 922 |
"0 0 0 805306368 272271360 890245320 136 \n",
|
|
@@ -925,16 +946,16 @@
|
|
| 925 |
"3 0 6685696 2033191680 1345701844 2133187096 220 \n",
|
| 926 |
"4 1048576 1107427332 2109513024 4081492984 4026260436 252 \n",
|
| 927 |
"... ... ... ... ... ... ... \n",
|
| 928 |
-
"
|
| 929 |
-
"
|
| 930 |
-
"
|
| 931 |
-
"
|
| 932 |
-
"
|
| 933 |
"\n",
|
| 934 |
-
"[
|
| 935 |
]
|
| 936 |
},
|
| 937 |
-
"execution_count":
|
| 938 |
"metadata": {},
|
| 939 |
"output_type": "execute_result"
|
| 940 |
}
|
|
@@ -945,7 +966,7 @@
|
|
| 945 |
},
|
| 946 |
{
|
| 947 |
"cell_type": "code",
|
| 948 |
-
"execution_count":
|
| 949 |
"id": "30f7fff7-3cfe-41c8-97c9-666f3e256222",
|
| 950 |
"metadata": {},
|
| 951 |
"outputs": [
|
|
@@ -955,7 +976,7 @@
|
|
| 955 |
"Index(['seq', 'smiles', 'affinity_uM', 0, 1, 2, 3, 4, 5], dtype='object')"
|
| 956 |
]
|
| 957 |
},
|
| 958 |
-
"execution_count":
|
| 959 |
"metadata": {},
|
| 960 |
"output_type": "execute_result"
|
| 961 |
}
|
|
@@ -966,7 +987,7 @@
|
|
| 966 |
},
|
| 967 |
{
|
| 968 |
"cell_type": "code",
|
| 969 |
-
"execution_count":
|
| 970 |
"id": "16d2b26e-984f-4c71-af19-a3e711ed9ca2",
|
| 971 |
"metadata": {},
|
| 972 |
"outputs": [],
|
|
@@ -976,7 +997,7 @@
|
|
| 976 |
},
|
| 977 |
{
|
| 978 |
"cell_type": "code",
|
| 979 |
-
"execution_count":
|
| 980 |
"id": "27fa2150-8152-444b-ba5b-24bea39fc098",
|
| 981 |
"metadata": {},
|
| 982 |
"outputs": [
|
|
@@ -986,7 +1007,7 @@
|
|
| 986 |
"Index(['smiles', 'affinity_uM'], dtype='object')"
|
| 987 |
]
|
| 988 |
},
|
| 989 |
-
"execution_count":
|
| 990 |
"metadata": {},
|
| 991 |
"output_type": "execute_result"
|
| 992 |
}
|
|
@@ -997,7 +1018,7 @@
|
|
| 997 |
},
|
| 998 |
{
|
| 999 |
"cell_type": "code",
|
| 1000 |
-
"execution_count":
|
| 1001 |
"id": "89edacbc-52f3-4a76-90b0-95273f5e53b3",
|
| 1002 |
"metadata": {},
|
| 1003 |
"outputs": [],
|
|
@@ -1008,7 +1029,7 @@
|
|
| 1008 |
},
|
| 1009 |
{
|
| 1010 |
"cell_type": "code",
|
| 1011 |
-
"execution_count":
|
| 1012 |
"id": "6a704c5e-68a6-418f-bcad-8688a13ca1d6",
|
| 1013 |
"metadata": {},
|
| 1014 |
"outputs": [],
|
|
@@ -1018,7 +1039,7 @@
|
|
| 1018 |
},
|
| 1019 |
{
|
| 1020 |
"cell_type": "code",
|
| 1021 |
-
"execution_count":
|
| 1022 |
"id": "0cad3882-975d-4693-aad1-63ec26646bd0",
|
| 1023 |
"metadata": {},
|
| 1024 |
"outputs": [
|
|
@@ -1037,7 +1058,7 @@
|
|
| 1037 |
},
|
| 1038 |
{
|
| 1039 |
"cell_type": "code",
|
| 1040 |
-
"execution_count":
|
| 1041 |
"id": "c200e29a-3f14-41f4-b620-ccce0eb0d5ce",
|
| 1042 |
"metadata": {},
|
| 1043 |
"outputs": [
|
|
@@ -1112,35 +1133,35 @@
|
|
| 1112 |
" <td>...</td>\n",
|
| 1113 |
" </tr>\n",
|
| 1114 |
" <tr>\n",
|
| 1115 |
-
" <th>
|
| 1116 |
" <td>IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLL...</td>\n",
|
| 1117 |
" <td>O=C[C@@H](NC(=O)[C@H](Cc1ccc(cc1)OS(O)(O)O)NC(...</td>\n",
|
| 1118 |
" <td>8.0000</td>\n",
|
| 1119 |
" <td>5.096910</td>\n",
|
| 1120 |
" </tr>\n",
|
| 1121 |
" <tr>\n",
|
| 1122 |
-
" <th>
|
| 1123 |
" <td>IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLL...</td>\n",
|
| 1124 |
" <td>CC(C[C@@H](C(=O)N1C=CC[C@H]1C(=O)N)NC(=O)[C@@H...</td>\n",
|
| 1125 |
" <td>8.0000</td>\n",
|
| 1126 |
" <td>5.096910</td>\n",
|
| 1127 |
" </tr>\n",
|
| 1128 |
" <tr>\n",
|
| 1129 |
-
" <th>
|
| 1130 |
" <td>PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWKPKM...</td>\n",
|
| 1131 |
" <td>O[C@@H]([C@H](Cc1ccccc1)NC(=O)[C@H](C(C)C)NC(=...</td>\n",
|
| 1132 |
" <td>0.0045</td>\n",
|
| 1133 |
" <td>8.346787</td>\n",
|
| 1134 |
" </tr>\n",
|
| 1135 |
" <tr>\n",
|
| 1136 |
-
" <th>
|
| 1137 |
" <td>ANIVGGIEYSINNASLCSVGFSVTRGATKGFVTAGHCGTVNATARI...</td>\n",
|
| 1138 |
" <td>CC(C[C@@H](B(O)O)NC(=O)[C@@H]1CCCN1C(=O)[C@@H]...</td>\n",
|
| 1139 |
" <td>2.0000</td>\n",
|
| 1140 |
" <td>5.698970</td>\n",
|
| 1141 |
" </tr>\n",
|
| 1142 |
" <tr>\n",
|
| 1143 |
-
" <th>
|
| 1144 |
" <td>KFPRVKNWELGSITYDTLCAQSQQDGPCTPRRCLGSLVLPRKLQTR...</td>\n",
|
| 1145 |
" <td>CC[Se]C(=N)N</td>\n",
|
| 1146 |
" <td>0.0390</td>\n",
|
|
@@ -1148,7 +1169,7 @@
|
|
| 1148 |
" </tr>\n",
|
| 1149 |
" </tbody>\n",
|
| 1150 |
"</table>\n",
|
| 1151 |
-
"<p>
|
| 1152 |
"</div>"
|
| 1153 |
],
|
| 1154 |
"text/plain": [
|
|
@@ -1159,11 +1180,11 @@
|
|
| 1159 |
"3 AAPFDKSKNVAQSIDQLIGQTPALYLNKLNNTKAKVVLKMECENPM... \n",
|
| 1160 |
"4 YITFRSFTAVLIAFFLTLVLSPSFINRLRKIQRKKYTPTMGGIVIL... \n",
|
| 1161 |
"... ... \n",
|
| 1162 |
-
"
|
| 1163 |
-
"
|
| 1164 |
-
"
|
| 1165 |
-
"
|
| 1166 |
-
"
|
| 1167 |
"\n",
|
| 1168 |
" smiles affinity_uM \\\n",
|
| 1169 |
"0 CCCCCCCCCCCCCCCCCCCC(=O)O 0.0260 \n",
|
|
@@ -1172,11 +1193,11 @@
|
|
| 1172 |
"3 OC[C@@H](C(=O)N[C@@H]([C@H](CC)C)C(=O)O)NC(=O)... 6.4300 \n",
|
| 1173 |
"4 CO[C@@H]1[C@H](O[C@H]([C@@H]1O)n1ccc(=O)[nH]c1... 0.1850 \n",
|
| 1174 |
"... ... ... \n",
|
| 1175 |
-
"
|
| 1176 |
-
"
|
| 1177 |
-
"
|
| 1178 |
-
"
|
| 1179 |
-
"
|
| 1180 |
"\n",
|
| 1181 |
" neg_log10_affinity_M \n",
|
| 1182 |
"0 7.585027 \n",
|
|
@@ -1185,16 +1206,16 @@
|
|
| 1185 |
"3 5.191789 \n",
|
| 1186 |
"4 6.732828 \n",
|
| 1187 |
"... ... \n",
|
| 1188 |
-
"
|
| 1189 |
-
"
|
| 1190 |
-
"
|
| 1191 |
-
"
|
| 1192 |
-
"
|
| 1193 |
"\n",
|
| 1194 |
-
"[
|
| 1195 |
]
|
| 1196 |
},
|
| 1197 |
-
"execution_count":
|
| 1198 |
"metadata": {},
|
| 1199 |
"output_type": "execute_result"
|
| 1200 |
}
|
|
@@ -1205,7 +1226,7 @@
|
|
| 1205 |
},
|
| 1206 |
{
|
| 1207 |
"cell_type": "code",
|
| 1208 |
-
"execution_count":
|
| 1209 |
"id": "7f4027a2-0a5f-47bf-8a34-0c6a73b9b112",
|
| 1210 |
"metadata": {},
|
| 1211 |
"outputs": [],
|
|
@@ -1215,7 +1236,7 @@
|
|
| 1215 |
},
|
| 1216 |
{
|
| 1217 |
"cell_type": "code",
|
| 1218 |
-
"execution_count":
|
| 1219 |
"id": "eb99774f-9bcc-454d-b5e5-a8470223d6ca",
|
| 1220 |
"metadata": {},
|
| 1221 |
"outputs": [],
|
|
@@ -1230,7 +1251,7 @@
|
|
| 1230 |
},
|
| 1231 |
{
|
| 1232 |
"cell_type": "code",
|
| 1233 |
-
"execution_count":
|
| 1234 |
"id": "4d44bd8e-f2e1-44b4-aea7-40b4437baf44",
|
| 1235 |
"metadata": {},
|
| 1236 |
"outputs": [],
|
|
@@ -1240,7 +1261,7 @@
|
|
| 1240 |
},
|
| 1241 |
{
|
| 1242 |
"cell_type": "code",
|
| 1243 |
-
"execution_count":
|
| 1244 |
"id": "07ffdeb1-f4fa-4776-9fea-a18439e03d2e",
|
| 1245 |
"metadata": {},
|
| 1246 |
"outputs": [],
|
|
@@ -1250,7 +1271,7 @@
|
|
| 1250 |
},
|
| 1251 |
{
|
| 1252 |
"cell_type": "code",
|
| 1253 |
-
"execution_count":
|
| 1254 |
"id": "8f949038-d07d-4d3a-a47e-b825cc9018ca",
|
| 1255 |
"metadata": {},
|
| 1256 |
"outputs": [],
|
|
@@ -1260,7 +1281,7 @@
|
|
| 1260 |
},
|
| 1261 |
{
|
| 1262 |
"cell_type": "code",
|
| 1263 |
-
"execution_count":
|
| 1264 |
"id": "0c027988-0b44-4010-ad61-7d70eead1654",
|
| 1265 |
"metadata": {},
|
| 1266 |
"outputs": [],
|
|
@@ -1270,7 +1291,7 @@
|
|
| 1270 |
},
|
| 1271 |
{
|
| 1272 |
"cell_type": "code",
|
| 1273 |
-
"execution_count":
|
| 1274 |
"id": "6aeba020-b6ff-4633-902e-4df74463eb2f",
|
| 1275 |
"metadata": {},
|
| 1276 |
"outputs": [],
|
|
@@ -1280,17 +1301,17 @@
|
|
| 1280 |
},
|
| 1281 |
{
|
| 1282 |
"cell_type": "code",
|
| 1283 |
-
"execution_count":
|
| 1284 |
"id": "91196eee-5fd0-4aa4-927a-5c1a3f436ac8",
|
| 1285 |
"metadata": {},
|
| 1286 |
"outputs": [
|
| 1287 |
{
|
| 1288 |
"data": {
|
| 1289 |
"text/plain": [
|
| 1290 |
-
"(array([6.
|
| 1291 |
]
|
| 1292 |
},
|
| 1293 |
-
"execution_count":
|
| 1294 |
"metadata": {},
|
| 1295 |
"output_type": "execute_result"
|
| 1296 |
}
|
|
@@ -1301,7 +1322,7 @@
|
|
| 1301 |
},
|
| 1302 |
{
|
| 1303 |
"cell_type": "code",
|
| 1304 |
-
"execution_count":
|
| 1305 |
"id": "56269dcb-e691-4759-949d-7bfdd02f5fd4",
|
| 1306 |
"metadata": {},
|
| 1307 |
"outputs": [],
|
|
@@ -1311,18 +1332,18 @@
|
|
| 1311 |
},
|
| 1312 |
{
|
| 1313 |
"cell_type": "code",
|
| 1314 |
-
"execution_count":
|
| 1315 |
"id": "c6c64066-4032-4247-a8b9-00388176cc7b",
|
| 1316 |
"metadata": {},
|
| 1317 |
"outputs": [],
|
| 1318 |
"source": [
|
| 1319 |
"#df.to_parquet('data/all.parquet')\n",
|
| 1320 |
-
"df = pd.read_parquet('data/all.parquet')"
|
| 1321 |
]
|
| 1322 |
},
|
| 1323 |
{
|
| 1324 |
"cell_type": "code",
|
| 1325 |
-
"execution_count":
|
| 1326 |
"id": "469cf0dd-7b87-4245-973c-2a445e1fcca9",
|
| 1327 |
"metadata": {},
|
| 1328 |
"outputs": [
|
|
@@ -1334,7 +1355,7 @@
|
|
| 1334 |
" dtype='object')"
|
| 1335 |
]
|
| 1336 |
},
|
| 1337 |
-
"execution_count":
|
| 1338 |
"metadata": {},
|
| 1339 |
"output_type": "execute_result"
|
| 1340 |
}
|
|
@@ -1345,13 +1366,13 @@
|
|
| 1345 |
},
|
| 1346 |
{
|
| 1347 |
"cell_type": "code",
|
| 1348 |
-
"execution_count":
|
| 1349 |
"id": "d91c0d91-474c-4ab2-9a5e-3b7861f7a832",
|
| 1350 |
"metadata": {},
|
| 1351 |
"outputs": [
|
| 1352 |
{
|
| 1353 |
"data": {
|
| 1354 |
-
"image/png": "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\n",
|
| 1355 |
"text/plain": [
|
| 1356 |
"<Figure size 432x288 with 1 Axes>"
|
| 1357 |
]
|
|
@@ -1371,17 +1392,17 @@
|
|
| 1371 |
},
|
| 1372 |
{
|
| 1373 |
"cell_type": "code",
|
| 1374 |
-
"execution_count":
|
| 1375 |
"id": "0e895ef5-1812-46c7-a4c2-dd6619b49157",
|
| 1376 |
"metadata": {},
|
| 1377 |
"outputs": [
|
| 1378 |
{
|
| 1379 |
"data": {
|
| 1380 |
"text/plain": [
|
| 1381 |
-
"
|
| 1382 |
]
|
| 1383 |
},
|
| 1384 |
-
"execution_count":
|
| 1385 |
"metadata": {},
|
| 1386 |
"output_type": "execute_result"
|
| 1387 |
}
|
|
@@ -1392,7 +1413,7 @@
|
|
| 1392 |
},
|
| 1393 |
{
|
| 1394 |
"cell_type": "code",
|
| 1395 |
-
"execution_count":
|
| 1396 |
"id": "3af855d3-a943-4574-985c-540d3f6b6f80",
|
| 1397 |
"metadata": {},
|
| 1398 |
"outputs": [
|
|
@@ -1403,13 +1424,13 @@
|
|
| 1403 |
" 'with_std': True,\n",
|
| 1404 |
" 'copy': True,\n",
|
| 1405 |
" 'n_features_in_': 1,\n",
|
| 1406 |
-
" 'n_samples_seen_':
|
| 1407 |
-
" 'mean_': array([6.
|
| 1408 |
-
" 'var_': array([2.
|
| 1409 |
-
" 'scale_': array([1.
|
| 1410 |
]
|
| 1411 |
},
|
| 1412 |
-
"execution_count":
|
| 1413 |
"metadata": {},
|
| 1414 |
"output_type": "execute_result"
|
| 1415 |
}
|
|
@@ -1420,7 +1441,7 @@
|
|
| 1420 |
},
|
| 1421 |
{
|
| 1422 |
"cell_type": "code",
|
| 1423 |
-
"execution_count":
|
| 1424 |
"id": "15f8d5b9-37d5-453e-a6df-df6510cc5c81",
|
| 1425 |
"metadata": {},
|
| 1426 |
"outputs": [],
|
|
@@ -1450,7 +1471,7 @@
|
|
| 1450 |
},
|
| 1451 |
{
|
| 1452 |
"cell_type": "code",
|
| 1453 |
-
"execution_count":
|
| 1454 |
"id": "8dec95dc-a014-4d39-ae51-8de981173573",
|
| 1455 |
"metadata": {},
|
| 1456 |
"outputs": [],
|
|
@@ -1461,7 +1482,7 @@
|
|
| 1461 |
},
|
| 1462 |
{
|
| 1463 |
"cell_type": "code",
|
| 1464 |
-
"execution_count":
|
| 1465 |
"id": "3f90eadd-d7e4-4104-961f-adaf5437e24b",
|
| 1466 |
"metadata": {},
|
| 1467 |
"outputs": [],
|
|
@@ -1471,17 +1492,17 @@
|
|
| 1471 |
},
|
| 1472 |
{
|
| 1473 |
"cell_type": "code",
|
| 1474 |
-
"execution_count":
|
| 1475 |
"id": "f5f5335a-8f28-4058-8647-fcc8f7d2f841",
|
| 1476 |
"metadata": {},
|
| 1477 |
"outputs": [
|
| 1478 |
{
|
| 1479 |
"data": {
|
| 1480 |
"text/plain": [
|
| 1481 |
-
"
|
| 1482 |
]
|
| 1483 |
},
|
| 1484 |
-
"execution_count":
|
| 1485 |
"metadata": {},
|
| 1486 |
"output_type": "execute_result"
|
| 1487 |
}
|
|
@@ -1492,7 +1513,7 @@
|
|
| 1492 |
},
|
| 1493 |
{
|
| 1494 |
"cell_type": "code",
|
| 1495 |
-
"execution_count":
|
| 1496 |
"id": "47966268-c97c-4bd9-9c90-eb568249f2ef",
|
| 1497 |
"metadata": {},
|
| 1498 |
"outputs": [],
|
|
@@ -1510,7 +1531,7 @@
|
|
| 1510 |
},
|
| 1511 |
{
|
| 1512 |
"cell_type": "code",
|
| 1513 |
-
"execution_count":
|
| 1514 |
"id": "c0d250a3-5680-446c-9c98-7d6623643304",
|
| 1515 |
"metadata": {},
|
| 1516 |
"outputs": [],
|
|
@@ -1521,7 +1542,7 @@
|
|
| 1521 |
},
|
| 1522 |
{
|
| 1523 |
"cell_type": "code",
|
| 1524 |
-
"execution_count":
|
| 1525 |
"id": "0c7c0b26-1f2a-4b80-8117-f1e02719aac9",
|
| 1526 |
"metadata": {},
|
| 1527 |
"outputs": [
|
|
@@ -1529,14 +1550,14 @@
|
|
| 1529 |
"name": "stderr",
|
| 1530 |
"output_type": "stream",
|
| 1531 |
"text": [
|
| 1532 |
-
"RDKit WARNING: [
|
| 1533 |
-
"RDKit WARNING: [
|
| 1534 |
-
"RDKit WARNING: [
|
| 1535 |
-
"RDKit WARNING: [
|
| 1536 |
-
"RDKit WARNING: [
|
| 1537 |
-
"RDKit WARNING: [
|
| 1538 |
-
"RDKit WARNING: [
|
| 1539 |
-
"RDKit WARNING: [
|
| 1540 |
]
|
| 1541 |
}
|
| 1542 |
],
|
|
@@ -1547,7 +1568,7 @@
|
|
| 1547 |
},
|
| 1548 |
{
|
| 1549 |
"cell_type": "code",
|
| 1550 |
-
"execution_count":
|
| 1551 |
"id": "258f593c-1cba-45cb-936e-8c1360075926",
|
| 1552 |
"metadata": {},
|
| 1553 |
"outputs": [],
|
|
@@ -1557,7 +1578,7 @@
|
|
| 1557 |
},
|
| 1558 |
{
|
| 1559 |
"cell_type": "code",
|
| 1560 |
-
"execution_count":
|
| 1561 |
"id": "ee3fa0bc-9ad3-4ea7-9393-cbc7504f634c",
|
| 1562 |
"metadata": {},
|
| 1563 |
"outputs": [],
|
|
@@ -1568,10 +1589,12 @@
|
|
| 1568 |
{
|
| 1569 |
"cell_type": "code",
|
| 1570 |
"execution_count": null,
|
| 1571 |
-
"id": "
|
| 1572 |
"metadata": {},
|
| 1573 |
"outputs": [],
|
| 1574 |
-
"source": [
|
|
|
|
|
|
|
| 1575 |
}
|
| 1576 |
],
|
| 1577 |
"metadata": {
|
|
|
|
| 238 |
},
|
| 239 |
{
|
| 240 |
"cell_type": "code",
|
| 241 |
+
"execution_count": 7,
|
| 242 |
"id": "d7bfee2a-c4e6-48c9-b0c6-52f6a69c7453",
|
| 243 |
"metadata": {},
|
| 244 |
"outputs": [],
|
|
|
|
| 249 |
},
|
| 250 |
{
|
| 251 |
"cell_type": "code",
|
| 252 |
+
"execution_count": 8,
|
| 253 |
"id": "25553199-1715-40fb-9260-427bdd6c3706",
|
| 254 |
"metadata": {},
|
| 255 |
"outputs": [
|
|
|
|
| 381 |
"[25425 rows x 3 columns]"
|
| 382 |
]
|
| 383 |
},
|
| 384 |
+
"execution_count": 8,
|
| 385 |
"metadata": {},
|
| 386 |
"output_type": "execute_result"
|
| 387 |
}
|
|
|
|
| 392 |
},
|
| 393 |
{
|
| 394 |
"cell_type": "code",
|
| 395 |
+
"execution_count": 9,
|
| 396 |
"id": "b2c936bc-cdc8-4bc1-b92d-f8755fd65f0a",
|
| 397 |
"metadata": {},
|
| 398 |
"outputs": [],
|
|
|
|
| 403 |
},
|
| 404 |
{
|
| 405 |
"cell_type": "code",
|
| 406 |
+
"execution_count": 10,
|
| 407 |
"id": "cee93018-601d-458b-af44-bd978da7a2bc",
|
| 408 |
"metadata": {},
|
| 409 |
"outputs": [
|
|
|
|
| 535 |
"[13645 rows x 3 columns]"
|
| 536 |
]
|
| 537 |
},
|
| 538 |
+
"execution_count": 10,
|
| 539 |
"metadata": {},
|
| 540 |
"output_type": "execute_result"
|
| 541 |
}
|
|
|
|
| 546 |
},
|
| 547 |
{
|
| 548 |
"cell_type": "code",
|
| 549 |
+
"execution_count": 11,
|
| 550 |
"id": "195f92db-fe06-4d03-8500-8d6c310a3347",
|
| 551 |
"metadata": {},
|
| 552 |
"outputs": [],
|
|
|
|
| 556 |
},
|
| 557 |
{
|
| 558 |
"cell_type": "code",
|
| 559 |
+
"execution_count": 12,
|
| 560 |
"id": "d25c1e24-6566-4944-a0b4-944b3c8dbc6f",
|
| 561 |
"metadata": {},
|
| 562 |
"outputs": [
|
| 563 |
{
|
| 564 |
"data": {
|
| 565 |
"text/plain": [
|
| 566 |
+
"2283641"
|
| 567 |
]
|
| 568 |
},
|
| 569 |
+
"execution_count": 12,
|
| 570 |
"metadata": {},
|
| 571 |
"output_type": "execute_result"
|
| 572 |
}
|
|
|
|
| 577 |
},
|
| 578 |
{
|
| 579 |
"cell_type": "code",
|
| 580 |
+
"execution_count": 13,
|
| 581 |
"id": "c8287da2-cfdf-4d89-b175-f4c6b38ff8ac",
|
| 582 |
"metadata": {},
|
| 583 |
"outputs": [
|
|
|
|
| 607 |
},
|
| 608 |
{
|
| 609 |
"cell_type": "code",
|
| 610 |
+
"execution_count": 16,
|
| 611 |
"id": "59a6706d-dab9-4ee0-8ef6-33537a3622a4",
|
| 612 |
"metadata": {},
|
| 613 |
"outputs": [],
|
|
|
|
| 617 |
},
|
| 618 |
{
|
| 619 |
"cell_type": "code",
|
| 620 |
+
"execution_count": 17,
|
| 621 |
"id": "4ccf2ee5-d369-4c0e-bb91-792765d661bf",
|
| 622 |
"metadata": {},
|
| 623 |
"outputs": [],
|
|
|
|
| 627 |
},
|
| 628 |
{
|
| 629 |
"cell_type": "code",
|
| 630 |
+
"execution_count": 18,
|
| 631 |
+
"id": "399f4ace-6dc3-441f-972a-f7b3a103e239",
|
| 632 |
+
"metadata": {},
|
| 633 |
+
"outputs": [
|
| 634 |
+
{
|
| 635 |
+
"data": {
|
| 636 |
+
"text/plain": [
|
| 637 |
+
"2283641"
|
| 638 |
+
]
|
| 639 |
+
},
|
| 640 |
+
"execution_count": 18,
|
| 641 |
+
"metadata": {},
|
| 642 |
+
"output_type": "execute_result"
|
| 643 |
+
}
|
| 644 |
+
],
|
| 645 |
+
"source": [
|
| 646 |
+
"len(df_all)"
|
| 647 |
+
]
|
| 648 |
+
},
|
| 649 |
+
{
|
| 650 |
+
"cell_type": "code",
|
| 651 |
+
"execution_count": 19,
|
| 652 |
"id": "8a4bbb18-e62f-4774-ac6b-8a1be68204c1",
|
| 653 |
"metadata": {},
|
| 654 |
"outputs": [],
|
|
|
|
| 659 |
},
|
| 660 |
{
|
| 661 |
"cell_type": "code",
|
| 662 |
+
"execution_count": 25,
|
| 663 |
"id": "d210fe56-a7eb-4adc-a77a-14c0c6d0034e",
|
| 664 |
"metadata": {},
|
| 665 |
"outputs": [
|
| 666 |
{
|
| 667 |
"data": {
|
| 668 |
"text/plain": [
|
| 669 |
+
"2277323"
|
| 670 |
]
|
| 671 |
},
|
| 672 |
+
"execution_count": 25,
|
| 673 |
"metadata": {},
|
| 674 |
"output_type": "execute_result"
|
| 675 |
}
|
|
|
|
| 680 |
},
|
| 681 |
{
|
| 682 |
"cell_type": "code",
|
| 683 |
+
"execution_count": 26,
|
| 684 |
"id": "d12b365d-98bd-4b61-b836-1a08d2e55418",
|
| 685 |
"metadata": {},
|
| 686 |
"outputs": [],
|
|
|
|
| 691 |
},
|
| 692 |
{
|
| 693 |
"cell_type": "code",
|
| 694 |
+
"execution_count": 27,
|
| 695 |
"id": "80c15210-1af3-436e-970b-f81fc596fb41",
|
| 696 |
"metadata": {},
|
| 697 |
"outputs": [],
|
|
|
|
| 701 |
},
|
| 702 |
{
|
| 703 |
"cell_type": "code",
|
| 704 |
+
"execution_count": 28,
|
| 705 |
"id": "30c314b8-8fe7-48ae-a2b8-149de1471b0c",
|
| 706 |
"metadata": {},
|
| 707 |
"outputs": [
|
|
|
|
| 717 |
"dtype: object"
|
| 718 |
]
|
| 719 |
},
|
| 720 |
+
"execution_count": 28,
|
| 721 |
"metadata": {},
|
| 722 |
"output_type": "execute_result"
|
| 723 |
}
|
|
|
|
| 728 |
},
|
| 729 |
{
|
| 730 |
"cell_type": "code",
|
| 731 |
+
"execution_count": 29,
|
| 732 |
"id": "70a0a820-4d0c-4472-af96-9c301c0ab204",
|
| 733 |
"metadata": {},
|
| 734 |
"outputs": [],
|
|
|
|
| 738 |
},
|
| 739 |
{
|
| 740 |
"cell_type": "code",
|
| 741 |
+
"execution_count": 30,
|
| 742 |
"id": "13d092fa-5625-40d0-b7ec-e3405ea20279",
|
| 743 |
"metadata": {},
|
| 744 |
"outputs": [
|
|
|
|
| 848 |
" <td>...</td>\n",
|
| 849 |
" </tr>\n",
|
| 850 |
" <tr>\n",
|
| 851 |
+
" <th>2277318</th>\n",
|
| 852 |
" <td>PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWKPKM...</td>\n",
|
| 853 |
" <td>O[C@@H]([C@H](Cc1ccccc1)NC(=O)[C@H](C(C)C)NC(=...</td>\n",
|
| 854 |
" <td>0.0045</td>\n",
|
|
|
|
| 860 |
" <td>252</td>\n",
|
| 861 |
" </tr>\n",
|
| 862 |
" <tr>\n",
|
| 863 |
+
" <th>2277319</th>\n",
|
| 864 |
" <td>PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWKPKM...</td>\n",
|
| 865 |
" <td>O[C@@H]([C@H](Cc1ccccc1)NC(=O)[C@H](C(C)C)NC(=...</td>\n",
|
| 866 |
" <td>0.0045</td>\n",
|
|
|
|
| 872 |
" <td>252</td>\n",
|
| 873 |
" </tr>\n",
|
| 874 |
" <tr>\n",
|
| 875 |
+
" <th>2277320</th>\n",
|
| 876 |
" <td>SKVVVPAQGKKITLQNGKLNVPENPIIPYIEGDGIGVDVTPAMLKV...</td>\n",
|
| 877 |
" <td>O[C@@H]1[C@@H](COP(=O)(O)O)O[C@H]([C@@H]1OP(=O...</td>\n",
|
| 878 |
" <td>125.0000</td>\n",
|
|
|
|
| 884 |
" <td>124</td>\n",
|
| 885 |
" </tr>\n",
|
| 886 |
" <tr>\n",
|
| 887 |
+
" <th>2277321</th>\n",
|
| 888 |
" <td>ANIVGGIEYSINNASLCSVGFSVTRGATKGFVTAGHCGTVNATARI...</td>\n",
|
| 889 |
" <td>CC(C[C@@H](B(O)O)NC(=O)[C@@H]1CCCN1C(=O)[C@@H]...</td>\n",
|
| 890 |
" <td>2.0000</td>\n",
|
|
|
|
| 896 |
" <td>204</td>\n",
|
| 897 |
" </tr>\n",
|
| 898 |
" <tr>\n",
|
| 899 |
+
" <th>2277322</th>\n",
|
| 900 |
" <td>KFPRVKNWELGSITYDTLCAQSQQDGPCTPRRCLGSLVLPRKLQTR...</td>\n",
|
| 901 |
" <td>CC[Se]C(=N)N</td>\n",
|
| 902 |
" <td>0.0390</td>\n",
|
|
|
|
| 909 |
" </tr>\n",
|
| 910 |
" </tbody>\n",
|
| 911 |
"</table>\n",
|
| 912 |
+
"<p>2277323 rows × 9 columns</p>\n",
|
| 913 |
"</div>"
|
| 914 |
],
|
| 915 |
"text/plain": [
|
|
|
|
| 920 |
"3 AAPFDKSKNVAQSIDQLIGQTPALYLNKLNNTKAKVVLKMECENPM... \n",
|
| 921 |
"4 YITFRSFTAVLIAFFLTLVLSPSFINRLRKIQRKKYTPTMGGIVIL... \n",
|
| 922 |
"... ... \n",
|
| 923 |
+
"2277318 PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWKPKM... \n",
|
| 924 |
+
"2277319 PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWKPKM... \n",
|
| 925 |
+
"2277320 SKVVVPAQGKKITLQNGKLNVPENPIIPYIEGDGIGVDVTPAMLKV... \n",
|
| 926 |
+
"2277321 ANIVGGIEYSINNASLCSVGFSVTRGATKGFVTAGHCGTVNATARI... \n",
|
| 927 |
+
"2277322 KFPRVKNWELGSITYDTLCAQSQQDGPCTPRRCLGSLVLPRKLQTR... \n",
|
| 928 |
"\n",
|
| 929 |
" smiles affinity_uM \\\n",
|
| 930 |
"0 CCCCCCCCCCCCCCCCCCCC(=O)O 0.0260 \n",
|
|
|
|
| 933 |
"3 OC[C@@H](C(=O)N[C@@H]([C@H](CC)C)C(=O)O)NC(=O)... 6.4300 \n",
|
| 934 |
"4 CO[C@@H]1[C@H](O[C@H]([C@@H]1O)n1ccc(=O)[nH]c1... 0.1850 \n",
|
| 935 |
"... ... ... \n",
|
| 936 |
+
"2277318 O[C@@H]([C@H](Cc1ccccc1)NC(=O)[C@H](C(C)C)NC(=... 0.0045 \n",
|
| 937 |
+
"2277319 O[C@@H]([C@H](Cc1ccccc1)NC(=O)[C@H](C(C)C)NC(=... 0.0045 \n",
|
| 938 |
+
"2277320 O[C@@H]1[C@@H](COP(=O)(O)O)O[C@H]([C@@H]1OP(=O... 125.0000 \n",
|
| 939 |
+
"2277321 CC(C[C@@H](B(O)O)NC(=O)[C@@H]1CCCN1C(=O)[C@@H]... 2.0000 \n",
|
| 940 |
+
"2277322 CC[Se]C(=N)N 0.0390 \n",
|
| 941 |
"\n",
|
| 942 |
" 0 1 2 3 4 5 \n",
|
| 943 |
"0 0 0 805306368 272271360 890245320 136 \n",
|
|
|
|
| 946 |
"3 0 6685696 2033191680 1345701844 2133187096 220 \n",
|
| 947 |
"4 1048576 1107427332 2109513024 4081492984 4026260436 252 \n",
|
| 948 |
"... ... ... ... ... ... ... \n",
|
| 949 |
+
"2277318 65536 393216 964698368 369403648 4284858000 252 \n",
|
| 950 |
+
"2277319 65536 393216 964698368 369403648 4284858000 252 \n",
|
| 951 |
+
"2277320 67108864 1115688962 1771869508 4018431718 3744193341 124 \n",
|
| 952 |
+
"2277321 2097152 137216 958148868 1746307978 2067783280 204 \n",
|
| 953 |
+
"2277322 16 6144 537396736 2170880 1510015504 192 \n",
|
| 954 |
"\n",
|
| 955 |
+
"[2277323 rows x 9 columns]"
|
| 956 |
]
|
| 957 |
},
|
| 958 |
+
"execution_count": 30,
|
| 959 |
"metadata": {},
|
| 960 |
"output_type": "execute_result"
|
| 961 |
}
|
|
|
|
| 966 |
},
|
| 967 |
{
|
| 968 |
"cell_type": "code",
|
| 969 |
+
"execution_count": 31,
|
| 970 |
"id": "30f7fff7-3cfe-41c8-97c9-666f3e256222",
|
| 971 |
"metadata": {},
|
| 972 |
"outputs": [
|
|
|
|
| 976 |
"Index(['seq', 'smiles', 'affinity_uM', 0, 1, 2, 3, 4, 5], dtype='object')"
|
| 977 |
]
|
| 978 |
},
|
| 979 |
+
"execution_count": 31,
|
| 980 |
"metadata": {},
|
| 981 |
"output_type": "execute_result"
|
| 982 |
}
|
|
|
|
| 987 |
},
|
| 988 |
{
|
| 989 |
"cell_type": "code",
|
| 990 |
+
"execution_count": 32,
|
| 991 |
"id": "16d2b26e-984f-4c71-af19-a3e711ed9ca2",
|
| 992 |
"metadata": {},
|
| 993 |
"outputs": [],
|
|
|
|
| 997 |
},
|
| 998 |
{
|
| 999 |
"cell_type": "code",
|
| 1000 |
+
"execution_count": 33,
|
| 1001 |
"id": "27fa2150-8152-444b-ba5b-24bea39fc098",
|
| 1002 |
"metadata": {},
|
| 1003 |
"outputs": [
|
|
|
|
| 1007 |
"Index(['smiles', 'affinity_uM'], dtype='object')"
|
| 1008 |
]
|
| 1009 |
},
|
| 1010 |
+
"execution_count": 33,
|
| 1011 |
"metadata": {},
|
| 1012 |
"output_type": "execute_result"
|
| 1013 |
}
|
|
|
|
| 1018 |
},
|
| 1019 |
{
|
| 1020 |
"cell_type": "code",
|
| 1021 |
+
"execution_count": 34,
|
| 1022 |
"id": "89edacbc-52f3-4a76-90b0-95273f5e53b3",
|
| 1023 |
"metadata": {},
|
| 1024 |
"outputs": [],
|
|
|
|
| 1029 |
},
|
| 1030 |
{
|
| 1031 |
"cell_type": "code",
|
| 1032 |
+
"execution_count": 36,
|
| 1033 |
"id": "6a704c5e-68a6-418f-bcad-8688a13ca1d6",
|
| 1034 |
"metadata": {},
|
| 1035 |
"outputs": [],
|
|
|
|
| 1039 |
},
|
| 1040 |
{
|
| 1041 |
"cell_type": "code",
|
| 1042 |
+
"execution_count": 37,
|
| 1043 |
"id": "0cad3882-975d-4693-aad1-63ec26646bd0",
|
| 1044 |
"metadata": {},
|
| 1045 |
"outputs": [
|
|
|
|
| 1058 |
},
|
| 1059 |
{
|
| 1060 |
"cell_type": "code",
|
| 1061 |
+
"execution_count": 38,
|
| 1062 |
"id": "c200e29a-3f14-41f4-b620-ccce0eb0d5ce",
|
| 1063 |
"metadata": {},
|
| 1064 |
"outputs": [
|
|
|
|
| 1133 |
" <td>...</td>\n",
|
| 1134 |
" </tr>\n",
|
| 1135 |
" <tr>\n",
|
| 1136 |
+
" <th>1838495</th>\n",
|
| 1137 |
" <td>IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLL...</td>\n",
|
| 1138 |
" <td>O=C[C@@H](NC(=O)[C@H](Cc1ccc(cc1)OS(O)(O)O)NC(...</td>\n",
|
| 1139 |
" <td>8.0000</td>\n",
|
| 1140 |
" <td>5.096910</td>\n",
|
| 1141 |
" </tr>\n",
|
| 1142 |
" <tr>\n",
|
| 1143 |
+
" <th>1838496</th>\n",
|
| 1144 |
" <td>IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLL...</td>\n",
|
| 1145 |
" <td>CC(C[C@@H](C(=O)N1C=CC[C@H]1C(=O)N)NC(=O)[C@@H...</td>\n",
|
| 1146 |
" <td>8.0000</td>\n",
|
| 1147 |
" <td>5.096910</td>\n",
|
| 1148 |
" </tr>\n",
|
| 1149 |
" <tr>\n",
|
| 1150 |
+
" <th>1838497</th>\n",
|
| 1151 |
" <td>PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWKPKM...</td>\n",
|
| 1152 |
" <td>O[C@@H]([C@H](Cc1ccccc1)NC(=O)[C@H](C(C)C)NC(=...</td>\n",
|
| 1153 |
" <td>0.0045</td>\n",
|
| 1154 |
" <td>8.346787</td>\n",
|
| 1155 |
" </tr>\n",
|
| 1156 |
" <tr>\n",
|
| 1157 |
+
" <th>1838498</th>\n",
|
| 1158 |
" <td>ANIVGGIEYSINNASLCSVGFSVTRGATKGFVTAGHCGTVNATARI...</td>\n",
|
| 1159 |
" <td>CC(C[C@@H](B(O)O)NC(=O)[C@@H]1CCCN1C(=O)[C@@H]...</td>\n",
|
| 1160 |
" <td>2.0000</td>\n",
|
| 1161 |
" <td>5.698970</td>\n",
|
| 1162 |
" </tr>\n",
|
| 1163 |
" <tr>\n",
|
| 1164 |
+
" <th>1838499</th>\n",
|
| 1165 |
" <td>KFPRVKNWELGSITYDTLCAQSQQDGPCTPRRCLGSLVLPRKLQTR...</td>\n",
|
| 1166 |
" <td>CC[Se]C(=N)N</td>\n",
|
| 1167 |
" <td>0.0390</td>\n",
|
|
|
|
| 1169 |
" </tr>\n",
|
| 1170 |
" </tbody>\n",
|
| 1171 |
"</table>\n",
|
| 1172 |
+
"<p>1838500 rows × 4 columns</p>\n",
|
| 1173 |
"</div>"
|
| 1174 |
],
|
| 1175 |
"text/plain": [
|
|
|
|
| 1180 |
"3 AAPFDKSKNVAQSIDQLIGQTPALYLNKLNNTKAKVVLKMECENPM... \n",
|
| 1181 |
"4 YITFRSFTAVLIAFFLTLVLSPSFINRLRKIQRKKYTPTMGGIVIL... \n",
|
| 1182 |
"... ... \n",
|
| 1183 |
+
"1838495 IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLL... \n",
|
| 1184 |
+
"1838496 IVEGSDAEIGMSPWQVMLFRKSPQELLCGASLISDRWVLTAAHCLL... \n",
|
| 1185 |
+
"1838497 PQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWKPKM... \n",
|
| 1186 |
+
"1838498 ANIVGGIEYSINNASLCSVGFSVTRGATKGFVTAGHCGTVNATARI... \n",
|
| 1187 |
+
"1838499 KFPRVKNWELGSITYDTLCAQSQQDGPCTPRRCLGSLVLPRKLQTR... \n",
|
| 1188 |
"\n",
|
| 1189 |
" smiles affinity_uM \\\n",
|
| 1190 |
"0 CCCCCCCCCCCCCCCCCCCC(=O)O 0.0260 \n",
|
|
|
|
| 1193 |
"3 OC[C@@H](C(=O)N[C@@H]([C@H](CC)C)C(=O)O)NC(=O)... 6.4300 \n",
|
| 1194 |
"4 CO[C@@H]1[C@H](O[C@H]([C@@H]1O)n1ccc(=O)[nH]c1... 0.1850 \n",
|
| 1195 |
"... ... ... \n",
|
| 1196 |
+
"1838495 O=C[C@@H](NC(=O)[C@H](Cc1ccc(cc1)OS(O)(O)O)NC(... 8.0000 \n",
|
| 1197 |
+
"1838496 CC(C[C@@H](C(=O)N1C=CC[C@H]1C(=O)N)NC(=O)[C@@H... 8.0000 \n",
|
| 1198 |
+
"1838497 O[C@@H]([C@H](Cc1ccccc1)NC(=O)[C@H](C(C)C)NC(=... 0.0045 \n",
|
| 1199 |
+
"1838498 CC(C[C@@H](B(O)O)NC(=O)[C@@H]1CCCN1C(=O)[C@@H]... 2.0000 \n",
|
| 1200 |
+
"1838499 CC[Se]C(=N)N 0.0390 \n",
|
| 1201 |
"\n",
|
| 1202 |
" neg_log10_affinity_M \n",
|
| 1203 |
"0 7.585027 \n",
|
|
|
|
| 1206 |
"3 5.191789 \n",
|
| 1207 |
"4 6.732828 \n",
|
| 1208 |
"... ... \n",
|
| 1209 |
+
"1838495 5.096910 \n",
|
| 1210 |
+
"1838496 5.096910 \n",
|
| 1211 |
+
"1838497 8.346787 \n",
|
| 1212 |
+
"1838498 5.698970 \n",
|
| 1213 |
+
"1838499 7.408935 \n",
|
| 1214 |
"\n",
|
| 1215 |
+
"[1838500 rows x 4 columns]"
|
| 1216 |
]
|
| 1217 |
},
|
| 1218 |
+
"execution_count": 38,
|
| 1219 |
"metadata": {},
|
| 1220 |
"output_type": "execute_result"
|
| 1221 |
}
|
|
|
|
| 1226 |
},
|
| 1227 |
{
|
| 1228 |
"cell_type": "code",
|
| 1229 |
+
"execution_count": 52,
|
| 1230 |
"id": "7f4027a2-0a5f-47bf-8a34-0c6a73b9b112",
|
| 1231 |
"metadata": {},
|
| 1232 |
"outputs": [],
|
|
|
|
| 1236 |
},
|
| 1237 |
{
|
| 1238 |
"cell_type": "code",
|
| 1239 |
+
"execution_count": 53,
|
| 1240 |
"id": "eb99774f-9bcc-454d-b5e5-a8470223d6ca",
|
| 1241 |
"metadata": {},
|
| 1242 |
"outputs": [],
|
|
|
|
| 1251 |
},
|
| 1252 |
{
|
| 1253 |
"cell_type": "code",
|
| 1254 |
+
"execution_count": 54,
|
| 1255 |
"id": "4d44bd8e-f2e1-44b4-aea7-40b4437baf44",
|
| 1256 |
"metadata": {},
|
| 1257 |
"outputs": [],
|
|
|
|
| 1261 |
},
|
| 1262 |
{
|
| 1263 |
"cell_type": "code",
|
| 1264 |
+
"execution_count": 55,
|
| 1265 |
"id": "07ffdeb1-f4fa-4776-9fea-a18439e03d2e",
|
| 1266 |
"metadata": {},
|
| 1267 |
"outputs": [],
|
|
|
|
| 1271 |
},
|
| 1272 |
{
|
| 1273 |
"cell_type": "code",
|
| 1274 |
+
"execution_count": 56,
|
| 1275 |
"id": "8f949038-d07d-4d3a-a47e-b825cc9018ca",
|
| 1276 |
"metadata": {},
|
| 1277 |
"outputs": [],
|
|
|
|
| 1281 |
},
|
| 1282 |
{
|
| 1283 |
"cell_type": "code",
|
| 1284 |
+
"execution_count": 57,
|
| 1285 |
"id": "0c027988-0b44-4010-ad61-7d70eead1654",
|
| 1286 |
"metadata": {},
|
| 1287 |
"outputs": [],
|
|
|
|
| 1291 |
},
|
| 1292 |
{
|
| 1293 |
"cell_type": "code",
|
| 1294 |
+
"execution_count": 58,
|
| 1295 |
"id": "6aeba020-b6ff-4633-902e-4df74463eb2f",
|
| 1296 |
"metadata": {},
|
| 1297 |
"outputs": [],
|
|
|
|
| 1301 |
},
|
| 1302 |
{
|
| 1303 |
"cell_type": "code",
|
| 1304 |
+
"execution_count": 59,
|
| 1305 |
"id": "91196eee-5fd0-4aa4-927a-5c1a3f436ac8",
|
| 1306 |
"metadata": {},
|
| 1307 |
"outputs": [
|
| 1308 |
{
|
| 1309 |
"data": {
|
| 1310 |
"text/plain": [
|
| 1311 |
+
"(array([6.50604534]), array([2.43319576]))"
|
| 1312 |
]
|
| 1313 |
},
|
| 1314 |
+
"execution_count": 59,
|
| 1315 |
"metadata": {},
|
| 1316 |
"output_type": "execute_result"
|
| 1317 |
}
|
|
|
|
| 1322 |
},
|
| 1323 |
{
|
| 1324 |
"cell_type": "code",
|
| 1325 |
+
"execution_count": 60,
|
| 1326 |
"id": "56269dcb-e691-4759-949d-7bfdd02f5fd4",
|
| 1327 |
"metadata": {},
|
| 1328 |
"outputs": [],
|
|
|
|
| 1332 |
},
|
| 1333 |
{
|
| 1334 |
"cell_type": "code",
|
| 1335 |
+
"execution_count": 61,
|
| 1336 |
"id": "c6c64066-4032-4247-a8b9-00388176cc7b",
|
| 1337 |
"metadata": {},
|
| 1338 |
"outputs": [],
|
| 1339 |
"source": [
|
| 1340 |
"#df.to_parquet('data/all.parquet')\n",
|
| 1341 |
+
"#df = pd.read_parquet('data/all.parquet')"
|
| 1342 |
]
|
| 1343 |
},
|
| 1344 |
{
|
| 1345 |
"cell_type": "code",
|
| 1346 |
+
"execution_count": 62,
|
| 1347 |
"id": "469cf0dd-7b87-4245-973c-2a445e1fcca9",
|
| 1348 |
"metadata": {},
|
| 1349 |
"outputs": [
|
|
|
|
| 1355 |
" dtype='object')"
|
| 1356 |
]
|
| 1357 |
},
|
| 1358 |
+
"execution_count": 62,
|
| 1359 |
"metadata": {},
|
| 1360 |
"output_type": "execute_result"
|
| 1361 |
}
|
|
|
|
| 1366 |
},
|
| 1367 |
{
|
| 1368 |
"cell_type": "code",
|
| 1369 |
+
"execution_count": 63,
|
| 1370 |
"id": "d91c0d91-474c-4ab2-9a5e-3b7861f7a832",
|
| 1371 |
"metadata": {},
|
| 1372 |
"outputs": [
|
| 1373 |
{
|
| 1374 |
"data": {
|
| 1375 |
+
"image/png": "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\n",
|
| 1376 |
"text/plain": [
|
| 1377 |
"<Figure size 432x288 with 1 Axes>"
|
| 1378 |
]
|
|
|
|
| 1392 |
},
|
| 1393 |
{
|
| 1394 |
"cell_type": "code",
|
| 1395 |
+
"execution_count": 64,
|
| 1396 |
"id": "0e895ef5-1812-46c7-a4c2-dd6619b49157",
|
| 1397 |
"metadata": {},
|
| 1398 |
"outputs": [
|
| 1399 |
{
|
| 1400 |
"data": {
|
| 1401 |
"text/plain": [
|
| 1402 |
+
"1836729"
|
| 1403 |
]
|
| 1404 |
},
|
| 1405 |
+
"execution_count": 64,
|
| 1406 |
"metadata": {},
|
| 1407 |
"output_type": "execute_result"
|
| 1408 |
}
|
|
|
|
| 1413 |
},
|
| 1414 |
{
|
| 1415 |
"cell_type": "code",
|
| 1416 |
+
"execution_count": 65,
|
| 1417 |
"id": "3af855d3-a943-4574-985c-540d3f6b6f80",
|
| 1418 |
"metadata": {},
|
| 1419 |
"outputs": [
|
|
|
|
| 1424 |
" 'with_std': True,\n",
|
| 1425 |
" 'copy': True,\n",
|
| 1426 |
" 'n_features_in_': 1,\n",
|
| 1427 |
+
" 'n_samples_seen_': 1836729,\n",
|
| 1428 |
+
" 'mean_': array([6.50604534]),\n",
|
| 1429 |
+
" 'var_': array([2.43319576]),\n",
|
| 1430 |
+
" 'scale_': array([1.55987043])}"
|
| 1431 |
]
|
| 1432 |
},
|
| 1433 |
+
"execution_count": 65,
|
| 1434 |
"metadata": {},
|
| 1435 |
"output_type": "execute_result"
|
| 1436 |
}
|
|
|
|
| 1441 |
},
|
| 1442 |
{
|
| 1443 |
"cell_type": "code",
|
| 1444 |
+
"execution_count": 66,
|
| 1445 |
"id": "15f8d5b9-37d5-453e-a6df-df6510cc5c81",
|
| 1446 |
"metadata": {},
|
| 1447 |
"outputs": [],
|
|
|
|
| 1471 |
},
|
| 1472 |
{
|
| 1473 |
"cell_type": "code",
|
| 1474 |
+
"execution_count": 67,
|
| 1475 |
"id": "8dec95dc-a014-4d39-ae51-8de981173573",
|
| 1476 |
"metadata": {},
|
| 1477 |
"outputs": [],
|
|
|
|
| 1482 |
},
|
| 1483 |
{
|
| 1484 |
"cell_type": "code",
|
| 1485 |
+
"execution_count": 68,
|
| 1486 |
"id": "3f90eadd-d7e4-4104-961f-adaf5437e24b",
|
| 1487 |
"metadata": {},
|
| 1488 |
"outputs": [],
|
|
|
|
| 1492 |
},
|
| 1493 |
{
|
| 1494 |
"cell_type": "code",
|
| 1495 |
+
"execution_count": 69,
|
| 1496 |
"id": "f5f5335a-8f28-4058-8647-fcc8f7d2f841",
|
| 1497 |
"metadata": {},
|
| 1498 |
"outputs": [
|
| 1499 |
{
|
| 1500 |
"data": {
|
| 1501 |
"text/plain": [
|
| 1502 |
+
"1836326"
|
| 1503 |
]
|
| 1504 |
},
|
| 1505 |
+
"execution_count": 69,
|
| 1506 |
"metadata": {},
|
| 1507 |
"output_type": "execute_result"
|
| 1508 |
}
|
|
|
|
| 1513 |
},
|
| 1514 |
{
|
| 1515 |
"cell_type": "code",
|
| 1516 |
+
"execution_count": 70,
|
| 1517 |
"id": "47966268-c97c-4bd9-9c90-eb568249f2ef",
|
| 1518 |
"metadata": {},
|
| 1519 |
"outputs": [],
|
|
|
|
| 1531 |
},
|
| 1532 |
{
|
| 1533 |
"cell_type": "code",
|
| 1534 |
+
"execution_count": 71,
|
| 1535 |
"id": "c0d250a3-5680-446c-9c98-7d6623643304",
|
| 1536 |
"metadata": {},
|
| 1537 |
"outputs": [],
|
|
|
|
| 1542 |
},
|
| 1543 |
{
|
| 1544 |
"cell_type": "code",
|
| 1545 |
+
"execution_count": 72,
|
| 1546 |
"id": "0c7c0b26-1f2a-4b80-8117-f1e02719aac9",
|
| 1547 |
"metadata": {},
|
| 1548 |
"outputs": [
|
|
|
|
| 1550 |
"name": "stderr",
|
| 1551 |
"output_type": "stream",
|
| 1552 |
"text": [
|
| 1553 |
+
"RDKit WARNING: [13:20:36] Warning: molecule is tagged as 3D, but all Z coords are zero\n",
|
| 1554 |
+
"RDKit WARNING: [13:20:37] Warning: molecule is tagged as 3D, but all Z coords are zero\n",
|
| 1555 |
+
"RDKit WARNING: [13:20:37] Warning: molecule is tagged as 3D, but all Z coords are zero\n",
|
| 1556 |
+
"RDKit WARNING: [13:20:37] Warning: molecule is tagged as 3D, but all Z coords are zero\n",
|
| 1557 |
+
"RDKit WARNING: [13:20:37] Warning: molecule is tagged as 3D, but all Z coords are zero\n",
|
| 1558 |
+
"RDKit WARNING: [13:20:37] Warning: molecule is tagged as 3D, but all Z coords are zero\n",
|
| 1559 |
+
"RDKit WARNING: [13:20:37] Warning: molecule is tagged as 3D, but all Z coords are zero\n",
|
| 1560 |
+
"RDKit WARNING: [13:20:37] Warning: molecule is tagged as 3D, but all Z coords are zero\n"
|
| 1561 |
]
|
| 1562 |
}
|
| 1563 |
],
|
|
|
|
| 1568 |
},
|
| 1569 |
{
|
| 1570 |
"cell_type": "code",
|
| 1571 |
+
"execution_count": 74,
|
| 1572 |
"id": "258f593c-1cba-45cb-936e-8c1360075926",
|
| 1573 |
"metadata": {},
|
| 1574 |
"outputs": [],
|
|
|
|
| 1578 |
},
|
| 1579 |
{
|
| 1580 |
"cell_type": "code",
|
| 1581 |
+
"execution_count": 75,
|
| 1582 |
"id": "ee3fa0bc-9ad3-4ea7-9393-cbc7504f634c",
|
| 1583 |
"metadata": {},
|
| 1584 |
"outputs": [],
|
|
|
|
| 1589 |
{
|
| 1590 |
"cell_type": "code",
|
| 1591 |
"execution_count": null,
|
| 1592 |
+
"id": "5c12fedc-4236-4587-a744-c0c9ec21ceaa",
|
| 1593 |
"metadata": {},
|
| 1594 |
"outputs": [],
|
| 1595 |
+
"source": [
|
| 1596 |
+
"l"
|
| 1597 |
+
]
|
| 1598 |
}
|
| 1599 |
],
|
| 1600 |
"metadata": {
|