PDB entry 4u60

View 4u60 on RCSB PDB site
Description: Trichodysplasia spinulosa-associated polyomavirus (TSPyV) VP1 in complex with GM1 oligosaccharide
Class: viral protein
Keywords: viral coat protein, jelly-roll fold, carbohydrate binding, viral protein
Deposited on 2014-07-26, released 2015-08-05
The last revision prior to the SCOPe 2.07 freeze date was dated 2015-09-02, with a file datestamp of 2015-08-28.
Experiment type: XRAY
Resolution: 1.5 Å
R-factor: N/A
AEROSPACI score: 0.48 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Structural protein VP1
    Species: Trichodysplasia spinulosa-associated polyomavirus [TaxId:862909]
    Gene: VP1
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d4u60a_
  • Chain 'B':
    Compound: Structural protein VP1
    Species: Trichodysplasia spinulosa-associated polyomavirus [TaxId:862909]
    Gene: VP1
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d4u60b_
  • Chain 'C':
    Compound: Structural protein VP1
    Species: Trichodysplasia spinulosa-associated polyomavirus [TaxId:862909]
    Gene: VP1
    Database cross-references and differences (RAF-indexed):
    • Uniprot E2ESL7 (Start-279)
      • expression tag (0-2)
    Domains in SCOPe 2.07: d4u60c1, d4u60c2
  • Chain 'D':
    Compound: Structural protein VP1
    Species: Trichodysplasia spinulosa-associated polyomavirus [TaxId:862909]
    Gene: VP1
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d4u60d_
  • Chain 'E':
    Compound: Structural protein VP1
    Species: Trichodysplasia spinulosa-associated polyomavirus [TaxId:862909]
    Gene: VP1
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d4u60e_
  • Heterogens: SIA, GAL, NGA, GOL, EDO, BGC, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download)
    >4u60A (A:)
    gshmaskgnievlnlvtgpdsittielylntrmgqndeskdnygysekvtvanssdqdkp
    tsgeiptystarinlpmlnedltcntltmweavsvktevvgvsslvnvhmatkrmyddkg
    igfpvegmnfhmfavggeplelqfltgnyrtdysandklvvppikhqstqglnphykqkl
    tkdgafpvecwcpdpsknentryygsytggqstppvlqftntvttvlldengvgplckgd
    glyvsccdivgflvgkdgdmqyrglpryfnillrkrtvrn
    

    Sequence, based on observed residues (ATOM records): (download)
    >4u60A (A:)
    ievlnlvtgpdsittielylntrmgqndeskdnygysekvtvanssdqdkptsgeiptys
    tarinlpmlnedltcntltmweavsvktevvgvsslvnvhmatkrmyddkgigfpvegmn
    fhmfavggeplelqfltgnyrtdysandklvvppikhqstqglnphykqkltkdgafpve
    cwcpdpsknentryygsytggqstppvlqftntvttvlldengvgplckgdglyvsccdi
    vgflvgkdgdmqyrglpryfnillrkrtvrn
    

  • Chain 'B':
    Sequence, based on SEQRES records: (download)
    >4u60B (B:)
    gshmaskgnievlnlvtgpdsittielylntrmgqndeskdnygysekvtvanssdqdkp
    tsgeiptystarinlpmlnedltcntltmweavsvktevvgvsslvnvhmatkrmyddkg
    igfpvegmnfhmfavggeplelqfltgnyrtdysandklvvppikhqstqglnphykqkl
    tkdgafpvecwcpdpsknentryygsytggqstppvlqftntvttvlldengvgplckgd
    glyvsccdivgflvgkdgdmqyrglpryfnillrkrtvrn
    

    Sequence, based on observed residues (ATOM records): (download)
    >4u60B (B:)
    ievlnlvtgsittielylntrmgqndeskdnygysekvtvanssdqdkptsgeiptysta
    rinlpmltltmweavsvktevvgvsslvnvhmatkrmyddkgigfpvegmnfhmfavgge
    plelqfltgnyrtdysandklvvppikhqstqglnphykqkltkdgafpvecwcpdpskn
    entryygsytggqstppvlqftntvttvlldengvgplckgdglyvsccdivgflvgkdg
    dmqyrglpryfnillrkrtvrn
    

  • Chain 'C':
    Sequence, based on SEQRES records: (download)
    >4u60C (C:)
    gshmaskgnievlnlvtgpdsittielylntrmgqndeskdnygysekvtvanssdqdkp
    tsgeiptystarinlpmlnedltcntltmweavsvktevvgvsslvnvhmatkrmyddkg
    igfpvegmnfhmfavggeplelqfltgnyrtdysandklvvppikhqstqglnphykqkl
    tkdgafpvecwcpdpsknentryygsytggqstppvlqftntvttvlldengvgplckgd
    glyvsccdivgflvgkdgdmqyrglpryfnillrkrtvrn
    

    Sequence, based on observed residues (ATOM records): (download)
    >4u60C (C:)
    gshievlnlvtgpdsittielylntrmgqndeskdnygysekvtvanssdqdkptsgeip
    tystarinlpmlnedltcntltmweavsvktevvgvsslvnvhmatkrmyddkgigfpve
    gmnfhmfavggeplelqfltgnyrtdysandklvvppikhqstqglnphykqkltkdgaf
    pvecwcpdpsknentryygsytggqstppvlqftntvttvlldengvgplckgdglyvsc
    cdivgflvgkdgdmqyrglpryfnillrkrtvrn
    

  • Chain 'D':
    Sequence, based on SEQRES records: (download)
    >4u60D (D:)
    gshmaskgnievlnlvtgpdsittielylntrmgqndeskdnygysekvtvanssdqdkp
    tsgeiptystarinlpmlnedltcntltmweavsvktevvgvsslvnvhmatkrmyddkg
    igfpvegmnfhmfavggeplelqfltgnyrtdysandklvvppikhqstqglnphykqkl
    tkdgafpvecwcpdpsknentryygsytggqstppvlqftntvttvlldengvgplckgd
    glyvsccdivgflvgkdgdmqyrglpryfnillrkrtvrn
    

    Sequence, based on observed residues (ATOM records): (download)
    >4u60D (D:)
    ievlnlvtgpdsittielylntrmgqndeskdnygysekvtvanssdqdkptsgeiptys
    tarinlpmlnedntltmweavsvktevvgvsslvnvhmatkrmyddkgigfpvegmnfhm
    favggeplelqfltgnyrtdysandklvvppikhqstqglnphykqkltkdgafpvecwc
    pdpsknentryygsytggqstppvlqftntvttvlldengvgplckgdglyvsccdivgf
    lvgkdgdmqyrglpryfnillrkrtvrn
    

  • Chain 'E':
    Sequence, based on SEQRES records: (download)
    >4u60E (E:)
    gshmaskgnievlnlvtgpdsittielylntrmgqndeskdnygysekvtvanssdqdkp
    tsgeiptystarinlpmlnedltcntltmweavsvktevvgvsslvnvhmatkrmyddkg
    igfpvegmnfhmfavggeplelqfltgnyrtdysandklvvppikhqstqglnphykqkl
    tkdgafpvecwcpdpsknentryygsytggqstppvlqftntvttvlldengvgplckgd
    glyvsccdivgflvgkdgdmqyrglpryfnillrkrtvrn
    

    Sequence, based on observed residues (ATOM records): (download)
    >4u60E (E:)
    ievlnlvtgpdsittielylntrmgqndeskdnygysekvtvanssdqdkptsgeiptys
    tarinlpmlnedltcntltmweavsvktevvgvsslvnvhmatkrmyddkgigfpvegmn
    fhmfavggeplelqfltgnyrtdysandklvvppikhqstqglnphykqkltkdgafpve
    cwcpdpsknentryygsytggqstppvlqftntvttvlldengvgplckgdglyvsccdi
    vgflvgkdgdmqyrglpryfnillrkrtvrn