PDB entry 6y5x

View 6y5x on RCSB PDB site
Description: Structure of apo New Jersey Polyomavirus VP1
Class: viral protein
Keywords: Major Capsid Protein, Polyomavirus, VIRAL PROTEIN
Deposited on 2020-02-26, released 2020-07-08
The last revision prior to the SCOPe 2.08 freeze date was dated 2020-08-12, with a file datestamp of 2020-08-07.
Experiment type: XRAY
Resolution: 2.3 Å
R-factor: N/A
AEROSPACI score: 0.33 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: vp1
    Species: New Jersey polyomavirus-2013 [TaxId:1497391]
    Gene: VP1
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6y5xa_
  • Chain 'B':
    Compound: vp1
    Species: New Jersey polyomavirus-2013 [TaxId:1497391]
    Gene: VP1
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6y5xb_
  • Chain 'C':
    Compound: vp1
    Species: New Jersey polyomavirus-2013 [TaxId:1497391]
    Gene: VP1
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6y5xc_
  • Chain 'D':
    Compound: vp1
    Species: New Jersey polyomavirus-2013 [TaxId:1497391]
    Gene: VP1
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6y5xd_
  • Chain 'E':
    Compound: vp1
    Species: New Jersey polyomavirus-2013 [TaxId:1497391]
    Gene: VP1
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6y5xe_
  • Chain 'F':
    Compound: vp1
    Species: New Jersey polyomavirus-2013 [TaxId:1497391]
    Gene: VP1
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6y5xf_
  • Chain 'G':
    Compound: vp1
    Species: New Jersey polyomavirus-2013 [TaxId:1497391]
    Gene: VP1
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6y5xg_
  • Chain 'H':
    Compound: vp1
    Species: New Jersey polyomavirus-2013 [TaxId:1497391]
    Gene: VP1
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6y5xh_
  • Chain 'I':
    Compound: vp1
    Species: New Jersey polyomavirus-2013 [TaxId:1497391]
    Gene: VP1
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6y5xi_
  • Chain 'J':
    Compound: vp1
    Species: New Jersey polyomavirus-2013 [TaxId:1497391]
    Gene: VP1
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6y5xj_
  • Heterogens: GOL, MG, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >6y5xA (A:)
mgsshhhhhhssglvprgshmldggvevlniitgpdatteielwleprmgvnaptgdrke
wygysevihhadgydnnllsvqmpqyscarvqlpmlntdmtcetlmmweavscktevvgi
gslisvhlleakmeagpnsdgpsrpiegmnyhmfavggepldlqgiesngqtkyataipa
ksihpndiaklpeedkaqlqglvpkakakldkdgfypveewspdpsrnensryygsfvgg
lqtppnlqftnavstvlldengvgplckgdglfvscadicgvlvkadneairyrglpryf
kvtlrkravkn

    Sequence, based on observed residues (ATOM records): (download) 
    >6y5xA (A:)
atteielwleprmgvnaptgdrkewygysevihhadgydnnllsvqmpqyscarvqlpml
ntdmtcetlmmweavscktevvgigslisvhlleakmeagpnsdgpsrpiegmnyhmfav
ggepldlqgiesngqtkyataipaksihpndiaklpeedkaqlqglvpkakakldkdgfy
pveewspdpsrnensryygsfvgglqtppnlqftnavstvlldengvgplckgdglfvsc
adicgvlvkadneairyrglpryfkvtlrkravkn

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >6y5xB (B:)
mgsshhhhhhssglvprgshmldggvevlniitgpdatteielwleprmgvnaptgdrke
wygysevihhadgydnnllsvqmpqyscarvqlpmlntdmtcetlmmweavscktevvgi
gslisvhlleakmeagpnsdgpsrpiegmnyhmfavggepldlqgiesngqtkyataipa
ksihpndiaklpeedkaqlqglvpkakakldkdgfypveewspdpsrnensryygsfvgg
lqtppnlqftnavstvlldengvgplckgdglfvscadicgvlvkadneairyrglpryf
kvtlrkravkn

    Sequence, based on observed residues (ATOM records): (download) 
    >6y5xB (B:)
tteielwleprmgvnaptgdrkewygysevihhadgydnnllsvqmpqyscarvqlpmln
tdmtcetlmmweavscktevvgigslisvhlleakmeagpnsdgpsrpiegmnyhmfavg
gepldlqgiesngqtkyataipaksihpndiaklpeedkaqlqglvpkakakldkdgfyp
veewspdpsrnensryygsfvgglqtppnlqftnavstvlldengvgplckgdglfvsca
dicgvlvkadneairyrglpryfkvtlrkravkn

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >6y5xC (C:)
mgsshhhhhhssglvprgshmldggvevlniitgpdatteielwleprmgvnaptgdrke
wygysevihhadgydnnllsvqmpqyscarvqlpmlntdmtcetlmmweavscktevvgi
gslisvhlleakmeagpnsdgpsrpiegmnyhmfavggepldlqgiesngqtkyataipa
ksihpndiaklpeedkaqlqglvpkakakldkdgfypveewspdpsrnensryygsfvgg
lqtppnlqftnavstvlldengvgplckgdglfvscadicgvlvkadneairyrglpryf
kvtlrkravkn

    Sequence, based on observed residues (ATOM records): (download) 
    >6y5xC (C:)
tteielwleprmgvnaptgdrkewygysevihhadgydnnllsvqmpqyscarvqlpmln
tdmtcetlmmweavscktevvgigslisvhlleakmeagpnsdgpsrpiegmnyhmfavg
gepldlqgiesngqtkyataipaksihpndiaklpeedkaqlqglvpkakakldkdgfyp
veewspdpsrnensryygsfvgglqtppnlqftnavstvlldengvgplckgdglfvsca
dicgvlvkadneairyrglpryfkvtlrkravk

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >6y5xD (D:)
mgsshhhhhhssglvprgshmldggvevlniitgpdatteielwleprmgvnaptgdrke
wygysevihhadgydnnllsvqmpqyscarvqlpmlntdmtcetlmmweavscktevvgi
gslisvhlleakmeagpnsdgpsrpiegmnyhmfavggepldlqgiesngqtkyataipa
ksihpndiaklpeedkaqlqglvpkakakldkdgfypveewspdpsrnensryygsfvgg
lqtppnlqftnavstvlldengvgplckgdglfvscadicgvlvkadneairyrglpryf
kvtlrkravkn

    Sequence, based on observed residues (ATOM records): (download) 
    >6y5xD (D:)
evlniitdatteielwleprmgvnaptgdrkewygysevihhadgydnnllsvqmpqysc
arvqlpmlntdmtcetlmmweavscktevvgigslisvhlleakmeagpnsdgpsrpieg
mnyhmfavggepldlqgiesngqtkyataipaksihpndiaklpeedkaqlqglvpkaka
kldkdgfypveewspdpsrnensryygsfvgglqtppnlqftnavstvlldengvgplck
gdglfvscadicgvlvkadneairyrglpryfkvtlrkravkn

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >6y5xE (E:)
mgsshhhhhhssglvprgshmldggvevlniitgpdatteielwleprmgvnaptgdrke
wygysevihhadgydnnllsvqmpqyscarvqlpmlntdmtcetlmmweavscktevvgi
gslisvhlleakmeagpnsdgpsrpiegmnyhmfavggepldlqgiesngqtkyataipa
ksihpndiaklpeedkaqlqglvpkakakldkdgfypveewspdpsrnensryygsfvgg
lqtppnlqftnavstvlldengvgplckgdglfvscadicgvlvkadneairyrglpryf
kvtlrkravkn

    Sequence, based on observed residues (ATOM records): (download) 
    >6y5xE (E:)
atteielwleprmgvnaptgdrkewygysevihhadgydnnllsvqmpqyscarvqlpml
ntdmtcetlmmweavscktevvgigslisvhlleakmeagpnsdgpsrpiegmnyhmfav
ggepldlqgiesngqtkyataipaksihpndiaklpeedkaqlqglvpkakakldkdgfy
pveewspdpsrnensryygsfvgglqtppnlqftnavstvlldengvgplckgdglfvsc
adicgvlvkadneairyrglpryfkvtlrkravk

  • Chain 'F':
    Sequence, based on SEQRES records: (download) 
    >6y5xF (F:)
mgsshhhhhhssglvprgshmldggvevlniitgpdatteielwleprmgvnaptgdrke
wygysevihhadgydnnllsvqmpqyscarvqlpmlntdmtcetlmmweavscktevvgi
gslisvhlleakmeagpnsdgpsrpiegmnyhmfavggepldlqgiesngqtkyataipa
ksihpndiaklpeedkaqlqglvpkakakldkdgfypveewspdpsrnensryygsfvgg
lqtppnlqftnavstvlldengvgplckgdglfvscadicgvlvkadneairyrglpryf
kvtlrkravkn

    Sequence, based on observed residues (ATOM records): (download) 
    >6y5xF (F:)
evlniitdatteielwleprmgvnaptgdrkewygysevihhadgydnnllsvqmpqysc
arvqlpmlntdmtcetlmmweavscktevvgigslisvhlleakmeagpnsdgpsrpieg
mnyhmfavggepldlqgiesngqtkyataipaksihpndiaklpeedkaqlqglvpkaka
kldkdgfypveewspdpsrnensryygsfvgglqtppnlqftnavstvlldengvgplck
gdglfvscadicgvlvkadneairyrglpryfkvtlrkravk

  • Chain 'G':
    Sequence, based on SEQRES records: (download) 
    >6y5xG (G:)
mgsshhhhhhssglvprgshmldggvevlniitgpdatteielwleprmgvnaptgdrke
wygysevihhadgydnnllsvqmpqyscarvqlpmlntdmtcetlmmweavscktevvgi
gslisvhlleakmeagpnsdgpsrpiegmnyhmfavggepldlqgiesngqtkyataipa
ksihpndiaklpeedkaqlqglvpkakakldkdgfypveewspdpsrnensryygsfvgg
lqtppnlqftnavstvlldengvgplckgdglfvscadicgvlvkadneairyrglpryf
kvtlrkravkn

    Sequence, based on observed residues (ATOM records): (download) 
    >6y5xG (G:)
vevlniitgpdatteielwleprmgvnaptgdrkewygysevihhadgydnnllsvqmpq
yscarvqlpmlntdmtcetlmmweavscktevvgigslisvhlleakmeagpnsdgpsrp
iegmnyhmfavggepldlqgiesngqtkyataipaksihpndiaklpeedkaqlqglvpk
akakldkdgfypveewspdpsrnensryygsfvgglqtppnlqftnavstvlldengvgp
lckgdglfvscadicgvlvkadneairyrglpryfkvtlrkravkn

  • Chain 'H':
    Sequence, based on SEQRES records: (download) 
    >6y5xH (H:)
mgsshhhhhhssglvprgshmldggvevlniitgpdatteielwleprmgvnaptgdrke
wygysevihhadgydnnllsvqmpqyscarvqlpmlntdmtcetlmmweavscktevvgi
gslisvhlleakmeagpnsdgpsrpiegmnyhmfavggepldlqgiesngqtkyataipa
ksihpndiaklpeedkaqlqglvpkakakldkdgfypveewspdpsrnensryygsfvgg
lqtppnlqftnavstvlldengvgplckgdglfvscadicgvlvkadneairyrglpryf
kvtlrkravkn

    Sequence, based on observed residues (ATOM records): (download) 
    >6y5xH (H:)
atteielwleprmgvnaptgdrkewygysevihhadgydnnllsvqmpqyscarvqlpml
ntdmtcetlmmweavscktevvgigslisvhlleakmeagpnsdgpsrpiegmnyhmfav
ggepldlqgiesngqtkyataipaksihpndiaklpeedkaqlqglvpkakakldkdgfy
pveewspdpsrnensryygsfvgglqtppnlqftnavstvlldengvgplckgdglfvsc
adicgvlvkadneairyrglpryfkvtlrkravk

  • Chain 'I':
    Sequence, based on SEQRES records: (download) 
    >6y5xI (I:)
mgsshhhhhhssglvprgshmldggvevlniitgpdatteielwleprmgvnaptgdrke
wygysevihhadgydnnllsvqmpqyscarvqlpmlntdmtcetlmmweavscktevvgi
gslisvhlleakmeagpnsdgpsrpiegmnyhmfavggepldlqgiesngqtkyataipa
ksihpndiaklpeedkaqlqglvpkakakldkdgfypveewspdpsrnensryygsfvgg
lqtppnlqftnavstvlldengvgplckgdglfvscadicgvlvkadneairyrglpryf
kvtlrkravkn

    Sequence, based on observed residues (ATOM records): (download) 
    >6y5xI (I:)
atteielwleprmgvnaptgdrkewygysevihhadgydnnllsvqmpqyscarvqlpml
ntdmtcetlmmweavscktevvgigslisvhlleakmeagpnsdgpsrpiegmnyhmfav
ggepldlqgiesngqtkyataipaksihpndiaklpeedkaqlqglvpkakakldkdgfy
pveewspdpsrnensryygsfvgglqtppnlqftnavstvlldengvgplckgdglfvsc
adicgvlvkadneairyrglpryfkvtlrkravk

  • Chain 'J':
    Sequence, based on SEQRES records: (download) 
    >6y5xJ (J:)
mgsshhhhhhssglvprgshmldggvevlniitgpdatteielwleprmgvnaptgdrke
wygysevihhadgydnnllsvqmpqyscarvqlpmlntdmtcetlmmweavscktevvgi
gslisvhlleakmeagpnsdgpsrpiegmnyhmfavggepldlqgiesngqtkyataipa
ksihpndiaklpeedkaqlqglvpkakakldkdgfypveewspdpsrnensryygsfvgg
lqtppnlqftnavstvlldengvgplckgdglfvscadicgvlvkadneairyrglpryf
kvtlrkravkn

    Sequence, based on observed residues (ATOM records): (download) 
    >6y5xJ (J:)
atteielwleprmgvnaptgdrkewygysevihhadgydnnllsvqmpqyscarvqlpml
ntdmtcetlmmweavscktevvgigslisvhlleakmeagpnsdgpsrpiegmnyhmfav
ggepldlqgiesngqtkyataipaksihpndiaklpeedkaqlqglvpkakakldkdgfy
pveewspdpsrnensryygsfvgglqtppnlqftnavstvlldengvgplckgdglfvsc
adicgvlvkadneairyrglpryfkvtlrkravk