Structure of PDB 3qgf Chain B

Receptor sequence

>3qgfB (length=533) Species: 31647 (Hepatitis C virus subtype 1b)

SMSYTWTGALITPCYATTSRSASLRQKKVTFDRLQVLDDHYRDVLKEMKA
KASTVKAKLLSVEEACKLTPPHSARSKFGYGAKDVRNLSSKAVNHIRSVW
KDLLEDTETPIDTTIMAKNEVFCVQPEKGGRKPARLIVFPDLGVRVCEKM
ALYDVVSTLPQAVMGSSYGFQYSPGQRVEFLVNAWKAKKCPMGFAYDTRC
FDSTVTENDIRVEESIYQCCDLAPEARQAIRSLTERLYIGGPLTNSKGQN
CGYRRCRASGVLTTSCGNTLTCYLKAAAACRAAKLQDCTMLVCGDDLVVI
CESAGTQEDEASLRAFTEAMTRYSAPPGDPPKPEYDLELITSCSSNVSVA
HDASGKRVYYLTRDPTTPLARAAWETARHTPVNSWLGNIIMYAPTLWARM
ILMTHFFSILLAQEQLEKALDCQIYGACYSIEPLDLPQIIQRLHGLSAFS
LHSYSPGEINRVASCLRKLGVPPLRVWRHRARSVRARLLSQGGRAATCGK
YLFNWAVRTKLKLTPIPAADLSSWFVAGYSGGD

3D structure

• PDB: 3qgf Investigation of the mode of binding of a novel series of N-benzyl-4-heteroaryl-1-(phenylsulfonyl)piperazine-2-carboxamides to the hepatitis C virus polymerase.
• Chain: B
• Resolution: 2.45 Å

Enzymatic activity

• 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.

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	23E	B	L392 A395 A396 I424 H428 L492 G493 V494 P495 P496 R498 V499 W500 R503	L369 A372 A373 I401 H405 L469 G470 V471 P472 P473 R475 V476 W477 R480
BS02	46F	B	F193 Y195 S196 P197 R200 S368 M414 I447 Y448 Y452 L466 L547	F170 Y172 S173 P174 R177 S345 M391 I424 Y425 Y429 L443 L521

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003968 RNA-dependent RNA polymerase activity

Biological Process

• GO:0039694 viral RNA genome replication

External links

• PDB: RCSB:3qgf, PDBe:3qgf, PDBj:3qgf
• PDBsum: 3qgf
• PubMed: 21441029
• UniProt: Q9WMX2|POLG_HCVCO Genome polyprotein