Structure of PDB 7thm Chain A Binding Site BS02

Receptor Information
>7thm Chain A (length=860) 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]
SFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKCRFQE
KDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKVPHISRQR
LTKYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVEN
PDILRVYANLGERVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYD
FGDFIQPGSGVPVVDSYYSLLMPILTLTRALTAESHVDTKPYIKWDLLKY
DFTEERLKLFDRYFKYWDQTYHPNCVNCLDDRCILHCANFNVLFSTVFPP
TSFGPLVRKIFVDGVPFVVSTGYHFRELGVVHNQDVNLHSFKELLVYAAD
PAMHAASGNLLLDKRTTCFSVAALTNNVAFQTVKPGNFNKDFYDFAVSKG
FFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQLLFVVEVVD
KYFDCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMQDALFAYT
KRNVIPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAA
TRGATVVIGTSKFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLR
IMASLVLARKHTTCCSLSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTS
SGDATTAYANSVFNICQAVTANVNALLSTDGNKDKYVRNLQHRLYECLYR
NRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNSTYASQGLVASIKNFK
SVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQYVYLPYPDPSR
ILGAGCFVDDIMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLEP
EFYEAMYTPH
Ligand information
Ligand IDZN
InChIInChI=1S/Zn/q+2
InChIKeyPTFCDOFLOPIGGS-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341[Zn++]
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Zn+2]
FormulaZn
NameZINC ION
ChEMBLCHEMBL1236970
DrugBankDB14532
ZINC
PDB chain7thm Chain A Residue 1002 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB7thm The mechanism of RNA capping by SARS-CoV-2.
Resolution3.18 Å
Binding residue
(original residue number in PDB)		C487 H642 C646
Binding residue
(residue number reindexed from 1)		C460 H611 C615
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.-
Gene Ontology
Molecular Function
GO:0003723 RNA binding
GO:0003968 RNA-dependent RNA polymerase activity
GO:0005524 ATP binding
Biological Process
GO:0006351 DNA-templated transcription
GO:0039694 viral RNA genome replication

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:7thm, PDBe:7thm, PDBj:7thm
PDBsum7thm
PubMed35944563
UniProtP0DTD1|R1AB_SARS2 Replicase polyprotein 1ab (Gene Name=rep)

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