PDB entry 2yi9

View 2yi9 on RCSB PDB site
Description: Structure of the RNA polymerase VP1 from Infectious Pancreatic Necrosis Virus in complex with magnesium
Class: transferase
Keywords: transferase, reverse transcriptase, ipnv
Deposited on 2011-05-11, released 2011-07-20
The last revision prior to the SCOPe 2.03 freeze date was dated 2011-12-28, with a file datestamp of 2011-12-23.
Experiment type: XRAY
Resolution: 2.2 Å
R-factor: 0.1605
AEROSPACI score: 0.44 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: RNA-directed RNA polymerase
    Species: INFECTIOUS PANCREATIC NECROSIS VIRUS [TaxId:11002]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P22173 (Start-789)
      • expression tag (790-791)
    Domains in SCOPe 2.03: d2yi9a_
  • Chain 'B':
    Compound: RNA-directed RNA polymerase
    Species: INFECTIOUS PANCREATIC NECROSIS VIRUS [TaxId:11002]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P22173 (Start-789)
      • expression tag (790-791)
    Domains in SCOPe 2.03: d2yi9b_
  • Chain 'C':
    Compound: RNA-directed RNA polymerase
    Species: INFECTIOUS PANCREATIC NECROSIS VIRUS [TaxId:11002]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P22173 (Start-789)
      • expression tag (790-791)
    Domains in SCOPe 2.03: d2yi9c_
  • Chain 'D':
    Compound: RNA-directed RNA polymerase
    Species: INFECTIOUS PANCREATIC NECROSIS VIRUS [TaxId:11002]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P22173 (Start-789)
      • expression tag (790-791)
    Domains in SCOPe 2.03: d2yi9d_
  • Chain 'E':
    Compound: RNA-directed RNA polymerase
    Species: INFECTIOUS PANCREATIC NECROSIS VIRUS [TaxId:11002]
    Database cross-references and differences (RAF-indexed):
    • Uniprot P22173 (Start-789)
      • expression tag (790-791)
    Domains in SCOPe 2.03: d2yi9e_
  • Heterogens: MG, K, CL, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >2yi9A (A:)
msdifnspqnkasiltalmksttgdvedvlipkrfrpakdpldspqaaaqflkdnkyril
rpraiptmveletdaalprlrqmvedgklkdtvsvpegttafypkyypfhkpdhdevgtf
gapditllkqltffllendfptgpetlrqvreaiatlqygsgsysgqlnrllamkgvatg
rnpnktpktvgytneqlaklleqtlpintpkhedpdlrwapswlinytgdlstdksylph
vtikssaglpyigktkgdttaealvladsfirdlgraatsadpeagvkktitdfwylscg
llfpkgerytqvdwdkktrniwsapypthlllsmvstpvmnesklnitntqtpslygfsp
fhggmdrimtiirdsldndedlvmiyadniyilqdntwysidlekgeanctpqhmqammy
ylltrgwtnedgsprynptwatfamnvapsmvvdsscllmnlqlktygqgsgnaftflnn
hlmstivvaewvkagkpnpmtkefmdleektginfkierelknlretiveavetapqdgy
ladgsdlppirpgkaveldllgwsaiysrqmemfvpvlenerliasaaypkglenkalar
kpgaeiayqivryeairlvggwnnplletaakhmsldkrkrlevkgidvtgflddwnnms
efggdlegitlsepltnqtlvdintpldsfdpkarpqtprspkktldevttaitsgtykd
pksavwrlldqrtklrvstlrdqalalkpasssvdnwaeateelaqqqqllmkannllks
sltetrealektghhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >2yi9A (A:)
kasiltalmipkrfrpakdpldspqaaaqflkdnkyrilrpraiptmveletdaalprlr
qmvedgklkdtvsvpegttafypkyypfhkpdhdevgtfgapditllkqltffllendfp
tgpetlrqvreaiatlqygsgsysgqlnrllamkgvatgrnpnktpktvgytneqlakll
eqtlpintpkhedpdlrwapswlinytgdlstdksylphvtikssaglpyigktkgdtta
ealvladsfirdlgraatsadpeagvkktitdfwylscgllfpkgerytqvdwdkktrni
wsapypthlllsmvstpvmnesklnitntqtpslygfspfhggmdrimtiirdsldnded
lvmiyadniyilqdntwysidlekgeanctpqhmqammyylltrgwtnedgsprynptwa
tfamnvapsmvvdsscllmnlqlktygqgsgnaftflnnhlmstivvaewvkagkpnpmt
kefmdleektginfkierelknlretiveavetapqdgyladgsdlppirpgkaveldll
gwsaiysrqmemfvpvlenerliasaaypkglenkalarkpgaeiayqivryeairlvgg
wnnplletaakhmsldkrkrlevkgidvtgflddwnnmsefggdlegitlsepltnqtlv
dintpldsfdpkarpqtprspkktldevttaitsgtykdpksavwrlldqrtklrvstlr
dqalalkpasssvdnwaeateelaqqqqllmkannllkssltetrealekt

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >2yi9B (B:)
msdifnspqnkasiltalmksttgdvedvlipkrfrpakdpldspqaaaqflkdnkyril
rpraiptmveletdaalprlrqmvedgklkdtvsvpegttafypkyypfhkpdhdevgtf
gapditllkqltffllendfptgpetlrqvreaiatlqygsgsysgqlnrllamkgvatg
rnpnktpktvgytneqlaklleqtlpintpkhedpdlrwapswlinytgdlstdksylph
vtikssaglpyigktkgdttaealvladsfirdlgraatsadpeagvkktitdfwylscg
llfpkgerytqvdwdkktrniwsapypthlllsmvstpvmnesklnitntqtpslygfsp
fhggmdrimtiirdsldndedlvmiyadniyilqdntwysidlekgeanctpqhmqammy
ylltrgwtnedgsprynptwatfamnvapsmvvdsscllmnlqlktygqgsgnaftflnn
hlmstivvaewvkagkpnpmtkefmdleektginfkierelknlretiveavetapqdgy
ladgsdlppirpgkaveldllgwsaiysrqmemfvpvlenerliasaaypkglenkalar
kpgaeiayqivryeairlvggwnnplletaakhmsldkrkrlevkgidvtgflddwnnms
efggdlegitlsepltnqtlvdintpldsfdpkarpqtprspkktldevttaitsgtykd
pksavwrlldqrtklrvstlrdqalalkpasssvdnwaeateelaqqqqllmkannllks
sltetrealektghhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >2yi9B (B:)
kasiltalmipkrfrpakdpldspqaaaqflkdnkyrilrpraiptmveletdaalprlr
qmvedgklkdtvsvpegttafypkyypfhkpdhdevgtfgapditllkqltffllendfp
tgpetlrqvreaiatlqygsgsysgqlnrllamkgvatgrnpnktpktvgytneqlakll
eqtlpintpkhedpdlrwapswlinytgdlstdksylphvtikssaglpyigktkgdtta
ealvladsfirdlgraatsadpeagvkktitdfwylscgllfpkgerytqvdwdkktrni
wsapypthlllsmvstpvmnesklnitntqtpslygfspfhggmdrimtiirdsldnded
lvmiyadniyilqdntwysidlekgeanctpqhmqammyylltrgwtnedgsprynptwa
tfamnvapsmvvdsscllmnlqlktygqgsgnaftflnnhlmstivvaewvkagkpnpmt
kefmdleektginfkierelknlretiveavetapqdgyladgsdlppirpgkaveldll
gwsaiysrqmemfvpvlenerliasaaypkglenkalarkpgaeiayqivryeairlvgg
wnnplletaakhmsldkrkrlevkgidvtgflddwnnmsefggdlegitlsepltnqtlv
dintpldsfdpkarpqtprspkktldevttaitsgtykdpksavwrlldqrtklrvstlr
dqalalkpasssvdnwaeateelaqqqqllmkannllkssltetrealekt

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >2yi9C (C:)
msdifnspqnkasiltalmksttgdvedvlipkrfrpakdpldspqaaaqflkdnkyril
rpraiptmveletdaalprlrqmvedgklkdtvsvpegttafypkyypfhkpdhdevgtf
gapditllkqltffllendfptgpetlrqvreaiatlqygsgsysgqlnrllamkgvatg
rnpnktpktvgytneqlaklleqtlpintpkhedpdlrwapswlinytgdlstdksylph
vtikssaglpyigktkgdttaealvladsfirdlgraatsadpeagvkktitdfwylscg
llfpkgerytqvdwdkktrniwsapypthlllsmvstpvmnesklnitntqtpslygfsp
fhggmdrimtiirdsldndedlvmiyadniyilqdntwysidlekgeanctpqhmqammy
ylltrgwtnedgsprynptwatfamnvapsmvvdsscllmnlqlktygqgsgnaftflnn
hlmstivvaewvkagkpnpmtkefmdleektginfkierelknlretiveavetapqdgy
ladgsdlppirpgkaveldllgwsaiysrqmemfvpvlenerliasaaypkglenkalar
kpgaeiayqivryeairlvggwnnplletaakhmsldkrkrlevkgidvtgflddwnnms
efggdlegitlsepltnqtlvdintpldsfdpkarpqtprspkktldevttaitsgtykd
pksavwrlldqrtklrvstlrdqalalkpasssvdnwaeateelaqqqqllmkannllks
sltetrealektghhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >2yi9C (C:)
kasiltalmipkrfrpakdpldspqaaaqflkdnkyrilrpraiptmveletdaalprlr
qmvedgklkdtvsvpegttafypkyypfhkpdhdevgtfgapditllkqltffllendfp
tgpetlrqvreaiatlqygsgsysgqlnrllamkgvatgrnpnktpktvgytneqlakll
eqtlpintpkhedpdlrwapswlinytgdlstdksylphvtikssaglpyigktkgdtta
ealvladsfirdlgraatsadpeagvkktitdfwylscgllfpkgerytqvdwdkktrni
wsapypthlllsmvstpvmnesklnitntqtpslygfspfhggmdrimtiirdsldnded
lvmiyadniyilqdntwysidlekgeanctpqhmqammyylltrgwtnedgsprynptwa
tfamnvapsmvvdsscllmnlqlktygqgsgnaftflnnhlmstivvaewvkagkpnpmt
kefmdleektginfkierelknlretiveavetapqdgyladgsdlppirpgkaveldll
gwsaiysrqmemfvpvlenerliasaaypkglenkalarkpgaeiayqivryeairlvgg
wnnplletaakhmsldkrkrlevkgidvtgflddwnnmsefggdlegitlsepltnqtlv
dintpldsfdpkarpqtprspkktldevttaitsgtykdpksavwrlldqrtklrvstlr
dqalalkpasssvdnwaeateelaqqqqllmkannllkssltetrealekt

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >2yi9D (D:)
msdifnspqnkasiltalmksttgdvedvlipkrfrpakdpldspqaaaqflkdnkyril
rpraiptmveletdaalprlrqmvedgklkdtvsvpegttafypkyypfhkpdhdevgtf
gapditllkqltffllendfptgpetlrqvreaiatlqygsgsysgqlnrllamkgvatg
rnpnktpktvgytneqlaklleqtlpintpkhedpdlrwapswlinytgdlstdksylph
vtikssaglpyigktkgdttaealvladsfirdlgraatsadpeagvkktitdfwylscg
llfpkgerytqvdwdkktrniwsapypthlllsmvstpvmnesklnitntqtpslygfsp
fhggmdrimtiirdsldndedlvmiyadniyilqdntwysidlekgeanctpqhmqammy
ylltrgwtnedgsprynptwatfamnvapsmvvdsscllmnlqlktygqgsgnaftflnn
hlmstivvaewvkagkpnpmtkefmdleektginfkierelknlretiveavetapqdgy
ladgsdlppirpgkaveldllgwsaiysrqmemfvpvlenerliasaaypkglenkalar
kpgaeiayqivryeairlvggwnnplletaakhmsldkrkrlevkgidvtgflddwnnms
efggdlegitlsepltnqtlvdintpldsfdpkarpqtprspkktldevttaitsgtykd
pksavwrlldqrtklrvstlrdqalalkpasssvdnwaeateelaqqqqllmkannllks
sltetrealektghhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >2yi9D (D:)
kasiltalmipkrfrpakdpldspqaaaqflkdnkyrilrpraiptmveletdaalprlr
qmvedgklkdtvsvpegttafypkyypfhkpdhdevgtfgapditllkqltffllendfp
tgpetlrqvreaiatlqygsgsysgqlnrllamkgvatgrnpnktpktvgytneqlakll
eqtlpintpkhedpdlrwapswlinytgdlstdksylphvtikssaglpyigktkgdtta
ealvladsfirdlgraatsadpeagvkktitdfwylscgllfpkgerytqvdwdkktrni
wsapypthlllsmvstpvmnesklnitntqtpslygfspfhggmdrimtiirdsldnded
lvmiyadniyilqdntwysidlekgeanctpqhmqammyylltrgwtnedgsprynptwa
tfamnvapsmvvdsscllmnlqlktygqgsgnaftflnnhlmstivvaewvkagkpnpmt
kefmdleektginfkierelknlretiveavetapqdgyladgsdlppirpgkaveldll
gwsaiysrqmemfvpvlenerliasaaypkglenkalarkpgaeiayqivryeairlvgg
wnnplletaakhmsldkrkrlevkgidvtgflddwnnmsefggdlegitlsepltnqtlv
dintpldsfdpkarpqtprspkktldevttaitsgtykdpksavwrlldqrtklrvstlr
dqalalkpasssvdnwaeateelaqqqqllmkannllkssltetrealekt

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >2yi9E (E:)
msdifnspqnkasiltalmksttgdvedvlipkrfrpakdpldspqaaaqflkdnkyril
rpraiptmveletdaalprlrqmvedgklkdtvsvpegttafypkyypfhkpdhdevgtf
gapditllkqltffllendfptgpetlrqvreaiatlqygsgsysgqlnrllamkgvatg
rnpnktpktvgytneqlaklleqtlpintpkhedpdlrwapswlinytgdlstdksylph
vtikssaglpyigktkgdttaealvladsfirdlgraatsadpeagvkktitdfwylscg
llfpkgerytqvdwdkktrniwsapypthlllsmvstpvmnesklnitntqtpslygfsp
fhggmdrimtiirdsldndedlvmiyadniyilqdntwysidlekgeanctpqhmqammy
ylltrgwtnedgsprynptwatfamnvapsmvvdsscllmnlqlktygqgsgnaftflnn
hlmstivvaewvkagkpnpmtkefmdleektginfkierelknlretiveavetapqdgy
ladgsdlppirpgkaveldllgwsaiysrqmemfvpvlenerliasaaypkglenkalar
kpgaeiayqivryeairlvggwnnplletaakhmsldkrkrlevkgidvtgflddwnnms
efggdlegitlsepltnqtlvdintpldsfdpkarpqtprspkktldevttaitsgtykd
pksavwrlldqrtklrvstlrdqalalkpasssvdnwaeateelaqqqqllmkannllks
sltetrealektghhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >2yi9E (E:)
kasiltalmipkrfrpakdpldspqaaaqflkdnkyrilrpraiptmveletdaalprlr
qmvedgklkdtvsvpegttafypkyypfhkpdhdevgtfgapditllkqltffllendfp
tgpetlrqvreaiatlqygsgsysgqlnrllamkgvatgrnpnktpktvgytneqlakll
eqtlpintpkhedpdlrwapswlinytgdlstdksylphvtikssaglpyigktkgdtta
ealvladsfirdlgraatsadpeagvkktitdfwylscgllfpkgerytqvdwdkktrni
wsapypthlllsmvstpvmnesklnitntqtpslygfspfhggmdrimtiirdsldnded
lvmiyadniyilqdntwysidlekgeanctpqhmqammyylltrgwtnedgsprynptwa
tfamnvapsmvvdsscllmnlqlktygqgsgnaftflnnhlmstivvaewvkagkpnpmt
kefmdleektginfkierelknlretiveavetapqdgyladgsdlppirpgkaveldll
gwsaiysrqmemfvpvlenerliasaaypkglenkalarkpgaeiayqivryeairlvgg
wnnplletaakhmsldkrkrlevkgidvtgflddwnnmsefggdlegitlsepltnqtlv
dintpldsfdpkarpqtprspkktldevttaitsgtykdpksavwrlldqrtklrvstlr
dqalalkpasssvdnwaeateelaqqqqllmkannllkssltetrealekt