Structure of PDB 3kqn Chain A

Receptor sequence

>3kqnA (length=437) Species: 333284 (Hepatitis C virus (isolate Con1))

SPPAVPQTFQVAHLHAPTGSGKSTKVPAAYAAQGYKVLVLNPSVAATLGF
GAYMSKAHGIDPNIRTGVRTITTGAPITYSTYGKFLADGGCSGGAYDIII
CDECHSTDSTTILGIGTVLDQAETAGARLVVLATATPPGSVTVPHPNIEE
VALSSTGEIPFYGKAIPIETIKGGRHLIFCHSKKKCDELAAKLSGLGLNA
VAYYRGLDVSVIPTSGDVIVVATDALMTGFTGDFDSVIDCNTCVTQTVDF
SLDPTFTIETTTVPQDAVSRSQRRGRTGRGRMGIYRFVTPGERPSGMFDS
SVLCECYDAGCAWYELTPAETSVRLRAYLNTPGLPVCQDHLEFWESVFTG
LTHIDAHFLSQTKQAGDNFPYLVAYQATVCARAQAPPPSWDQMWKCLIRL
KPTLHGPTPLLYRLGAVQNEVTTTHPITKYIMACMSA

3D structure

• PDB: 3kqn Three conformational snapshots of the hepatitis C virus NS3 helicase reveal a ratchet translocation mechanism.
• Chain: A
• Resolution: 2.05 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	dna	A	V232 T254 G255 G271 K272 A275 D296 T298 R393 W501 Q552	V44 T66 G67 G83 K84 A87 D108 T110 R205 W313 Q364
BS02	BEF	A	T206 K210 E291 R464 R467	T18 K22 E103 R276 R279
BS03	ADP	A	G207 S208 G209 K210 S211 T212 Y241 T419 R467 G468	G19 S20 G21 K22 S23 T24 Y53 T231 R279 G280
BS04	MN	A	S211 D290 E291	S23 D102 E103

Gene Ontology

Molecular Function

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

External links

• PDB: RCSB:3kqn, PDBe:3kqn, PDBj:3kqn
• PDBsum: 3kqn
• PubMed: 20080715
• UniProt: Q9WMX2|POLG_HCVCO Genome polyprotein