Structure of PDB 5rsr Chain A Binding Site BS01

Receptor Information
>5rsr Chain A (length=167) Species: 2697049 (Severe acute respiratory syndrome coronavirus 2) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
VNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGA
LNKATNNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNK
GEDIQLLKSAYENFNQHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVY
LAVFDKNLYDKLVSSFL
Ligand information
Ligand IDXIY
InChIInChI=1S/C8H8N2O/c11-5-8-9-6-3-1-2-4-7(6)10-8/h1-4,11H,5H2,(H,9,10)
InChIKeyIAJLTMBBAVVMQO-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.352OCc1[nH]c2ccccc2n1
ACDLabs 10.04OCc2nc1ccccc1n2
OpenEye OEToolkits 1.6.1c1ccc2c(c1)[nH]c(n2)CO
FormulaC8 H8 N2 O
Name2-HYDROXYMETHYL-BENZOIMIDAZOLE;
1H-BENZIMIDAZOL-2-YLMETHANOL
ChEMBLCHEMBL71443
DrugBank
ZINCZINC000000158650
PDB chain5rsr Chain A Residue 201 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB5rsr Fragment binding to the Nsp3 macrodomain of SARS-CoV-2 identified through crystallographic screening and computational docking.
Resolution1.0 Å
Binding residue
(original residue number in PDB)		D22 G48 V49 A52 F156
Binding residue
(residue number reindexed from 1)		D20 G46 V47 A50 F154
Annotation score1
Enzymatic activity
Enzyme Commision number 2.1.1.56: mRNA (guanine-N(7))-methyltransferase.
2.1.1.57: methyltransferase cap1.
2.7.7.48: RNA-directed RNA polymerase.
2.7.7.50: mRNA guanylyltransferase.
3.1.13.-
3.4.19.12: ubiquitinyl hydrolase 1.
3.4.22.-
3.4.22.69: SARS coronavirus main proteinase.
3.6.4.12: DNA helicase.
3.6.4.13: RNA helicase.
4.6.1.-
External links
PDB RCSB:5rsr, PDBe:5rsr, PDBj:5rsr
PDBsum5rsr
PubMed33853786
UniProtP0DTD1|R1AB_SARS2 Replicase polyprotein 1ab (Gene Name=rep)

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