Structure of PDB 2o8m Chain A Binding Site BS01

Receptor Information

>2o8m Chain A (length=185)

QMGAPITAYAQQTRGLLGCIITSLTGRDKNQVEGEVQIVSTATQTFLATC
INGVCWTVYHGAGTRTIASPKGPVIQMYTNVDQDLVGWPAPQGSRSLTPC
TCGSSDLYLVTRHADVIPVRRRGDSRGSLLSPRPISYLKGSAGGPLLCPA
GHAVGLFRAAVCTRGVAKAVDFIPVENLETTMRSG

Ligand information

>2o8m Chain C (length=23) Species: 63746 (Hepatitis C virus (isolate H77))

KKGCVVIVGRIVLSGKPAIIPKK

Receptor-Ligand Complex Structure

Structure summary

• PDB: 2o8m Discovery of the HCV NS3/4A protease inhibitor (1R,5S)-N-[3-amino-1-(cyclobutylmethyl)-2,3-dioxopropyl]-3- [2(S)-[[[(1,1-dimethylethyl)amino]carbonyl]amino]-3,3-dimethyl-1-oxobutyl]- 6,6-dimethyl-3-azabicyclo[3.1.0]hexan-2(S)-carboxamide (Sch 503034) II. Key steps in structure-based optimization
• Resolution: 2.0 Å
• Binding residue (original residue number in PDB): Q-3 T4 A5 Y6 A7 Q8 T10 C16 T19 S20 E30 E32 V33 Q34 I35 V36 S37 R62 T63 I64 A65 R109
• Binding residue (residue number reindexed from 1): Q1 T7 A8 Y9 A10 Q11 T13 C19 T22 S23 E33 E35 V36 Q37 I38 V39 S40 R65 T66 I67 A68 R112

Enzymatic activity

• Catalytic site (original residue number in PDB): H57 D81 G137 A139
• Catalytic site (residue number reindexed from 1): H60 D84 G140 A142
• Enzyme Commision number: 2.7.7.48: RNA-directed RNA polymerase.
  3.4.21.98: hepacivirin.
  3.4.22.-
  3.6.1.15: nucleoside-triphosphate phosphatase.
  3.6.4.13: RNA helicase.

Gene Ontology

Molecular Function

• GO:0008236 serine-type peptidase activity

Biological Process

• GO:0006508 proteolysis
• GO:0019087 transformation of host cell by virus

External links

• PDB: RCSB:2o8m, PDBe:2o8m, PDBj:2o8m
• PDBsum: 2o8m
• PubMed: 17444623
• UniProt: P27958|POLG_HCV77 Genome polyprotein