Structure of PDB 3h5y Chain A Binding Site BS03

Receptor Information

>3h5y Chain A (length=474) Species: 11983 (Norwalk virus)

KGTYCGAPILGPGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVK
GGPSLQQVMRDQLKPFTEPRGKPPKPSVLEAAKKTIINVLEQTIDPPDKW
SFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLADQASKANLMFEEG
KNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFGGLMD
ELKTHCVTLPIRVGMNMNEDGPIIFERHSRYRYHYDADYSRWDSTQQRAV
LAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPC
TSQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLD
PEKLTAKLKEYGLKPTRPPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQS
SILRQMYWTRGPNHEDPSETMIPHSQRPIQLMSLLGEAALHGPAFYSKIS
KLVIAELDFYVPRQEPMFRWMRFS

Ligand information

• Ligand ID: MN
• InChI: InChI=1S/Mn/q+2
• InChIKey: WAEMQWOKJMHJLA-UHFFFAOYSA-N
• SMILES:
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Mn+2]
  CACTVS 3.341: [Mn++]
• Formula: Mn
• Name: MANGANESE (II) ION
• DrugBank: DB06757
• PDB chain: 3h5y Chain A Residue 511

Receptor-Ligand Complex Structure

Structure summary

• PDB: 3h5y Binding of 2'-amino-2'-deoxycytidine-5'-triphosphate to norovirus polymerase induces rearrangement of the active site.
• Resolution: 1.77 Å
• Binding residue (original residue number in PDB): D242 D343 D344
• Binding residue (residue number reindexed from 1): D238 D339 D340
• Annotation score: 1

Enzymatic activity

• Enzyme Commision number: 3.4.22.66: calicivirin.

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003968 RNA-dependent RNA polymerase activity
• GO:0004386 helicase activity
• GO:0005524 ATP binding

Biological Process

• GO:0006351 DNA-templated transcription
• GO:0039694 viral RNA genome replication

External links

• PDB: RCSB:3h5y, PDBe:3h5y, PDBj:3h5y
• PDBsum: 3h5y
• PubMed: 19426741
• UniProt: Q70ET3