Structure of PDB 7r2v Chain B

Receptor sequence

>7r2vB (length=439) Species: 2697049 (Severe acute respiratory syndrome coronavirus 2)

THLSVDTKFKTEGLCIPKDMTYRRLISMMGFKMNYQVNGYPNMFITREEA
IRHVRAWIGFAVANLPLQLGFSTGVNLVAVPTKGLPWNVVRIKIVQMLSD
TLKNLSDRVVFVLWAHGFELTSMKYFVKIGPERTCCLCDRRATCFSTASD
TYACWHHSIGFDYVYNPFMIDVQQWGFTGNLQSNHDLYCQVHGNAVASCD
AIMTRCLAVHECFVKRVDWTIEYPIIGDELKINAACRKVQHMVVKAALLA
DKFPVLHDIGNPKAIKCVPQADVEWKFYDAQPCSDKAYKIEELFYSYATH
SDKFTDGVCLFWNCNVDRYPANSIVCRFDTRVLSNLNLPGCDGGSLYVNK
HAFHTPAFDKSAFVNLKQLPFFYYSDSPCEVPLKSATCITRCNLGGAVCR
HHANEYRLYLDAYNMMISAGFSLWVYKQFDTYNLWNTFT

3D structure

• PDB: 7r2v Refolding of lid subdomain of SARS-CoV-2 nsp14 upon nsp10 interaction releases exonuclease activity.
• Chain: B
• Resolution: 2.53 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	SAH	B	R310 G333 P335 D352 A353 F367 Y368 W385 N386 C387	R237 G260 P262 D279 A280 F294 Y295 W312 N313 C314
BS02	ZN	B	C452 C477 C484 H487	C379 C392 C399 H402
BS03	ZN	B	C207 C210 H229	C135 C138 H157
BS04	ZN	B	H257 C261 H264 C279	H185 C189 H192 C206

Gene Ontology

Molecular Function

• GO:0000175 3'-5'-RNA exonuclease activity
• GO:0004482 mRNA 5'-cap (guanine-N7-)-methyltransferase activity
• GO:0004532 RNA exonuclease activity
• GO:0008168 methyltransferase activity

External links

• PDB: RCSB:7r2v, PDBe:7r2v, PDBj:7r2v
• PDBsum: 7r2v
• PubMed: 35609600
• UniProt: P0DTD1|R1AB_SARS2 Replicase polyprotein 1ab (Gene Name=rep)