Structure of PDB 8gwn Chain A

Receptor sequence

>8gwnA (length=926) Species: 2697049 (Severe acute respiratory syndrome coronavirus 2) [Search protein sequence]

AQSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKFLKTNC
CRFQEKDEDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFK
FRIDGDMVPHISRQRLTKYTMADLVYALRHFDEGNCDTLKEILVTYNCCD
DDYFNKKDWYDFVENPDILRVYANLGERVRQALLKTVQFCDAMRNAGIVG
VLTLDNQDLNGNWYDFGDFIQTTPGSGVPVVDSYYSLLMPILTLTRALTA
ESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCLD
DRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGV
VHNQDVNLHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTN
NVAFQTVKPGNFNKDFYDFAVSKGFFKEGSSVELKHFFFAQDGNAAISDY
DYYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKSAG
FPFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNR
ARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLK
TVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFY
RLANECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTAN
VNALLSTDGNKIADKYVRNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHF
SMMILSDDAVVCFNSTYASQGLVASIKNFKSVLYYQNNVFMSEAKCWTET
DLTKGPHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDDIVKTDGT
LMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELTGHMLDMY
SVMLTNDNTSRYWEPEFYEAMYTPHT

3D structure

PDB

8gwn A mechanism for SARS-CoV-2 RNA capping and its inhibition by nucleotide analog inhibitors.

Chain

Resolution

3.38 Å

3D
structure

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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.-

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	rna	A	S759 C813 R836 M855	S756 C810 R833 M852
BS02	rna	A	K500 S501 N543 R569 G590 S592 F594 Y595 S682 G683 D684 A685 Y915	K497 S498 N540 R566 G587 S589 F591 Y592 S679 G680 D681 A682 Y912
BS03	ZN	A	H295 C306	H292 C303
BS04	ZN	A	C487 H642 C646	C484 H639 C643
BS05	GNP	A	K50 C53 R55 V71 K73 R116 T120 K121 N209 Y217 D218	K47 C50 R52 V68 K70 R113 T117 K118 N206 Y214 D215

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:8gwn, PDBe:8gwn, PDBj:8gwn
PDBsum	8gwn
PubMed	36335936
UniProt	P0DTD1\|R1AB_SARS2 Replicase polyprotein 1ab (Gene Name=rep)

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