Structure of PDB 2v6i Chain A Binding Site BS01

Receptor Information

>2v6i Chain A (length=421) Species: 44024 (Kokobera virus)

RELTVLDLHPGAGKTRRVLPQLVREAVKKRLRTVILAPTRVVASEMYEAL
RGEPIRYMGNEIVDFMCHSTFTMKLLQGVRVPNYNLYIMDEAHFLDPASV
AARGYIETRVSMGDAGAIFMTATPPGTTEAFPPSNSPIIDEETRIPDKAW
NSGYEWITEFDGRTVWFVHSIKQGAEIGTCLQKAGKKVLYLNRKTFESEY
PKCKSEKWDFVITTDISEMGANFKADRVIDPRKTIKPILLDGRVSMQGPI
AITPASAAQRRGRIGRNPEKLGDIYAYSGNVSSDNEGHVSWTEARMLLDN
VHVQGGVVAQLYTPEREKTEAYEGEFKLKTNQRKVFSELIRTGDLPVWLA
FQVASANVEYHDRKWCFDGPNEHLLLENNQEIEVWTRQGQRRVLKPRWLD
GRITSDHLNLKSFKEFASGKR

Ligand information

• Ligand ID: POP
• InChI: InChI=1S/H4O7P2/c1-8(2,3)7-9(4,5)6/h(H2,1,2,3)(H2,4,5,6)/p-2
• InChIKey: XPPKVPWEQAFLFU-UHFFFAOYSA-L
• SMILES:
  OpenEye OEToolkits 1.5.0: O[P@@](=O)([O-])O[P@@](=O)(O)[O-]
  CACTVS 3.341: O[P]([O-])(=O)O[P](O)([O-])=O
  ACDLabs 10.04: [O-]P(=O)(O)OP([O-])(=O)O
  OpenEye OEToolkits 1.5.0: OP(=O)([O-])OP(=O)(O)[O-]
• Formula: H2 O7 P2
• Name: PYROPHOSPHATE 2-
• PDB chain: 2v6i Chain A Residue 500

Receptor-Ligand Complex Structure

Structure summary

• PDB: 2v6i Structure and Biochemical Analysis of Kokobera Virus Helicase
• Resolution: 2.1 Å
• Binding residue (original residue number in PDB): P11 G12 G14 K15 R273 R276
• Binding residue (residue number reindexed from 1): P10 G11 G13 K14 R263 R266
• Annotation score: 5

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.
  3.4.21.91: flavivirin.
  3.6.1.15: nucleoside-triphosphate phosphatase.
  3.6.4.13: RNA helicase.

Gene Ontology

Molecular Function

• GO:0004386 helicase activity
• GO:0005524 ATP binding

External links

• PDB: RCSB:2v6i, PDBe:2v6i, PDBj:2v6i
• PDBsum: 2v6i
• PubMed: 18004778
• UniProt: Q32ZD5|POLG_KOKV Genome polyprotein