PDB entry 3i5k

View 3i5k on RCSB PDB site
Description: Crystal structure of the NS5B polymerase from Hepatitis C Virus (HCV) strain JFH1
Class: transferase
Keywords: RdRp structure (fingers, palm, thumb domains), Apoptosis, ATP-binding, Capsid protein, Cell membrane, Disulfide bond, Endoplasmic reticulum, Envelope protein, Fusion protein, Glycoprotein, Helicase, Host-virus interaction, Hydrolase, Interferon antiviral system evasion, Lipid droplet, Lipoprotein, Membrane, Metal-binding, Mitochondrion, Multifunctional enzyme, Nucleotide-binding, Nucleotidyltransferase, Nucleus, Oncogene, Palmitate, Phosphoprotein, Protease, Ribonucleoprotein, RNA replication, RNA-binding, RNA-directed RNA polymerase, Secreted, Serine protease, SH3-binding, Thiol protease, Transcription, Transcription regulation, Transferase, Transmembrane, Viral nucleoprotein, Virion
Deposited on 2009-07-05, released 2009-09-22
The last revision prior to the SCOPe 2.07 freeze date was dated 2011-07-13, with a file datestamp of 2011-05-08.
Experiment type: XRAY
Resolution: 2.2 Å
R-factor: 0.198
AEROSPACI score: 0.4 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: RNA-directed RNA polymerase
    Species: Hepatitis C virus JFH-1 [TaxId:356411]
    Gene: NS5B, p68
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q99IB8 (0-564)
      • expression tag (565)
    Domains in SCOPe 2.07: d3i5ka1, d3i5ka2
  • Chain 'B':
    Compound: RNA-directed RNA polymerase
    Species: Hepatitis C virus JFH-1 [TaxId:356411]
    Gene: NS5B, p68
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q99IB8 (0-564)
      • expression tag (565)
    Domains in SCOPe 2.07: d3i5kb1, d3i5kb2
  • Chain 'C':
    Compound: RNA-directed RNA polymerase
    Species: Hepatitis C virus JFH-1 [TaxId:356411]
    Gene: NS5B, p68
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q99IB8 (0-564)
      • expression tag (565)
    Domains in SCOPe 2.07: d3i5kc1, d3i5kc2
  • Chain 'D':
    Compound: RNA-directed RNA polymerase
    Species: Hepatitis C virus JFH-1 [TaxId:356411]
    Gene: NS5B, p68
    Database cross-references and differences (RAF-indexed):
    • Uniprot Q99IB8 (0-564)
      • expression tag (565)
    Domains in SCOPe 2.07: d3i5kd1, d3i5kd2
  • Heterogens: PO4, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >3i5kA (A:)
smsyswtgalitpcspeeeklpinplsnsllryhnkvycttsksasqrakkvtfdrtqvl
dahydsvlkdiklaaskvsarlltleeacqltpphsarskygfgakevrslsgravnhik
svwkdlledpqtpipttimaknevfcvdpakggkkparlivypdlgvrvcekmalyditq
klpqavmgasygfqyspaqrveyllkawaekkdpmgfsydtrcfdstvterdirteesiy
qacslpeeartaihslterlyvggpmfnskgqtcgyrrcrasgvlttsmgntitcyvkal
aackaagivaptmlvcgddlvvisesqgteedernlrafteamtrysappgdpprpeydl
elitscssnvsvalgprgrrryyltrdpttplaraawetvrhspinswlgniiqyaptiw
vrmvlmthffsilmvqdtldqnlnfemygsvysvnpldlpaiierlhgldafsmhtyshh
eltrvasalrklgapplrvwksraravraslisrggkaavcgrylfnwavktklkltplp
earlldlsswftvgagggdifhsvsv

  • Chain 'B':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >3i5kB (B:)
smsyswtgalitpcspeeeklpinplsnsllryhnkvycttsksasqrakkvtfdrtqvl
dahydsvlkdiklaaskvsarlltleeacqltpphsarskygfgakevrslsgravnhik
svwkdlledpqtpipttimaknevfcvdpakggkkparlivypdlgvrvcekmalyditq
klpqavmgasygfqyspaqrveyllkawaekkdpmgfsydtrcfdstvterdirteesiy
qacslpeeartaihslterlyvggpmfnskgqtcgyrrcrasgvlttsmgntitcyvkal
aackaagivaptmlvcgddlvvisesqgteedernlrafteamtrysappgdpprpeydl
elitscssnvsvalgprgrrryyltrdpttplaraawetvrhspinswlgniiqyaptiw
vrmvlmthffsilmvqdtldqnlnfemygsvysvnpldlpaiierlhgldafsmhtyshh
eltrvasalrklgapplrvwksraravraslisrggkaavcgrylfnwavktklkltplp
earlldlsswftvgagggdifhsvsv

  • Chain 'C':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >3i5kC (C:)
smsyswtgalitpcspeeeklpinplsnsllryhnkvycttsksasqrakkvtfdrtqvl
dahydsvlkdiklaaskvsarlltleeacqltpphsarskygfgakevrslsgravnhik
svwkdlledpqtpipttimaknevfcvdpakggkkparlivypdlgvrvcekmalyditq
klpqavmgasygfqyspaqrveyllkawaekkdpmgfsydtrcfdstvterdirteesiy
qacslpeeartaihslterlyvggpmfnskgqtcgyrrcrasgvlttsmgntitcyvkal
aackaagivaptmlvcgddlvvisesqgteedernlrafteamtrysappgdpprpeydl
elitscssnvsvalgprgrrryyltrdpttplaraawetvrhspinswlgniiqyaptiw
vrmvlmthffsilmvqdtldqnlnfemygsvysvnpldlpaiierlhgldafsmhtyshh
eltrvasalrklgapplrvwksraravraslisrggkaavcgrylfnwavktklkltplp
earlldlsswftvgagggdifhsvsv

  • Chain 'D':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >3i5kD (D:)
smsyswtgalitpcspeeeklpinplsnsllryhnkvycttsksasqrakkvtfdrtqvl
dahydsvlkdiklaaskvsarlltleeacqltpphsarskygfgakevrslsgravnhik
svwkdlledpqtpipttimaknevfcvdpakggkkparlivypdlgvrvcekmalyditq
klpqavmgasygfqyspaqrveyllkawaekkdpmgfsydtrcfdstvterdirteesiy
qacslpeeartaihslterlyvggpmfnskgqtcgyrrcrasgvlttsmgntitcyvkal
aackaagivaptmlvcgddlvvisesqgteedernlrafteamtrysappgdpprpeydl
elitscssnvsvalgprgrrryyltrdpttplaraawetvrhspinswlgniiqyaptiw
vrmvlmthffsilmvqdtldqnlnfemygsvysvnpldlpaiierlhgldafsmhtyshh
eltrvasalrklgapplrvwksraravraslisrggkaavcgrylfnwavktklkltplp
earlldlsswftvgagggdifhsvsv