Structure of PDB 4qpx Chain A Binding Site BS03

Receptor Information

>4qpx Chain A (length=495) Species: 11983 (Norwalk virus)

SKGTYCGAPILGPGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRV
KGGPSLQQVMRDQLKPFTEPRGKPPKPSVLEAAKKTIINVLEQTIDPPDK
WSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLADQASKANLMFEE
GKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFGGLM
DELKTHCVTLPIRVGMNMNEDGPIIFERHSRYRYHYDADYSRWDSTQQRA
VLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVP
CTSQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKL
DPEKLTAKLKEYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWF
GKLEQSSILRQMYWTRGPNHEDPSETMIPHSQRPIQLMSLLGEAALHGPA
FYSKISKLVIAELYVPRQEPMFRWMRFSDLSTWEGDRNLAPSFVN

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: 4qpx Chain A Residue 602

Receptor-Ligand Complex Structure

Structure summary

• PDB: 4qpx Structure of a backtracked state reveals conformational changes similar to the state following nucleotide incorporation in human norovirus polymerase.
• Resolution: 1.86 Å
• Binding residue (original residue number in PDB): D242 D343 D344
• Binding residue (residue number reindexed from 1): D239 D340 D341
• 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:4qpx, PDBe:4qpx, PDBj:4qpx
• PDBsum: 4qpx
• PubMed: 25478829
• UniProt: Q70ET3