Structure of PDB 6xqb Chain A

Receptor sequence

>6xqbA (length=801) Species: 2697049 (Severe acute respiratory syndrome coronavirus 2)

VYRAFDIYVAGFAKFLKRLTKYTMADLVYALRHFDEGNCDTLKEILVTYN
CCDDDYFNKKDWYDFVENPDILRVYANLGERVRQALLKTVQFCDAMRNAG
IVGVLTLDNQDLNGNWYDFGDFIQTGVPVVDSYYSLLMPILTLTRALTAE
SHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFKYWDQTYHPNCVNCLDD
RCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHFRELGVV
HNQDVNLHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNN
VAFQTVKPGNFNKDFYDFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYD
YYRYNLPTMCDIRQLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKSAGF
PFNKWGKARLYYDSMSYEDQDALFAYTKRNVIPTITQMNLKYAISAKNRA
RTVAGVSICSTMTNRQFHQKLLKSIAATRGATVVIGTSKFYGGWHNMLKT
VYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSLSHRFYR
LANECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANV
NALLSTIADKYVRNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMIL
SDDAVVCFNSTYASQGLVASIKNFKSVLYYQNNVFMSEAKCWTETDLTKG
PHEFCSQHTMLVKQGDDYVYLPYPDPSRILGAGCFVDDIVKTDGTLMIER
FVSLAIDAYPLTKHPNQEYADVFHLYLQYIRKLHDELMLTNDNTSRYWEP
E

3D structure

• PDB: 6xqb Structure of SARS-CoV-2 RdRp/RNA complex at 3.4 Angstroms resolution
• Chain: A
• Resolution: 3.4 Å

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	L758 S759 D760 D761 C813 S814 R836 R858	L650 S651 D652 D653 C705 S706 R728 R750
BS02	rna	A	N497 K500 S501 R569 I589 G590 S592 F594 S682 G683 D684 A685 Y689 E857	N393 K396 S397 R465 I485 G486 S488 F490 S578 G579 D580 A581 Y585 E749
BS03	ZN	A	H295 C301	H191 C197
BS04	ZN	A	C487 H642 C645 C646	C383 H538 C541 C542
BS05	MG	A	W617 D761 E811	W513 D653 E703

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

External links

• PDB: RCSB:6xqb, PDBe:6xqb, PDBj:6xqb
• PDBsum: 6xqb
• UniProt: P0DTD1|R1AB_SARS2 Replicase polyprotein 1ab (Gene Name=rep)