PDB entry 6hku

View 6hku on RCSB PDB site
Description: Trichodysplasia spinulosa-associated polyomavirus (TSPyV) VP1 in complex with sialylated precision glycooligomers
Class: viral protein
Keywords: sialic acid derivative, viral protein
Deposited on 2018-09-08, released 2019-03-27
The last revision prior to the SCOPe 2.08 freeze date was dated 2020-07-29, with a file datestamp of 2020-06-29.
Experiment type: XRAY
Resolution: 1.98 Å
R-factor: N/A
AEROSPACI score: 0.4 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Capsid protein VP1
    Species: Trichodysplasia spinulosa-associated polyomavirus [TaxId:862909]
    Gene: VP1
    Database cross-references and differences (RAF-indexed):
    • Uniprot E2ESL7 (0-271)
      • conflict (75)
    Domains in SCOPe 2.08: d6hkua_
  • Chain 'B':
    Compound: Capsid protein VP1
    Species: Trichodysplasia spinulosa-associated polyomavirus [TaxId:862909]
    Gene: VP1
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6hkub_
  • Chain 'C':
    Compound: Capsid protein VP1
    Species: Trichodysplasia spinulosa-associated polyomavirus [TaxId:862909]
    Gene: VP1
    Database cross-references and differences (RAF-indexed):
    • Uniprot E2ESL7 (0-271)
      • conflict (75)
    Domains in SCOPe 2.08: d6hkuc_
  • Chain 'D':
    Compound: Capsid protein VP1
    Species: Trichodysplasia spinulosa-associated polyomavirus [TaxId:862909]
    Gene: VP1
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6hkud_
  • Chain 'E':
    Compound: Capsid protein VP1
    Species: Trichodysplasia spinulosa-associated polyomavirus [TaxId:862909]
    Gene: VP1
    Database cross-references and differences (RAF-indexed):
    • Uniprot E2ESL7 (Start-271)
      • conflict (75)
    Domains in SCOPe 2.08: d6hkue_
  • Chain 'F':
    Compound: Capsid protein VP1
    Species: Trichodysplasia spinulosa-associated polyomavirus [TaxId:862909]
    Gene: VP1
    Database cross-references and differences (RAF-indexed):
    • Uniprot E2ESL7 (Start-271)
      • conflict (75)
    Domains in SCOPe 2.08: d6hkuf_
  • Chain 'G':
    Compound: Capsid protein VP1
    Species: Trichodysplasia spinulosa-associated polyomavirus [TaxId:862909]
    Gene: VP1
    Database cross-references and differences (RAF-indexed):
    • Uniprot E2ESL7 (Start-271)
      • conflict (75)
    Domains in SCOPe 2.08: d6hkug_
  • Chain 'H':
    Compound: Capsid protein VP1
    Species: Trichodysplasia spinulosa-associated polyomavirus [TaxId:862909]
    Gene: VP1
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6hkuh_
  • Chain 'I':
    Compound: Capsid protein VP1
    Species: Trichodysplasia spinulosa-associated polyomavirus [TaxId:862909]
    Gene: VP1
    Database cross-references and differences (RAF-indexed):
    • Uniprot E2ESL7 (0-271)
      • conflict (75)
    Domains in SCOPe 2.08: d6hkui_
  • Chain 'J':
    Compound: Capsid protein VP1
    Species: Trichodysplasia spinulosa-associated polyomavirus [TaxId:862909]
    Gene: VP1
    Database cross-references and differences (RAF-indexed):
    • Uniprot E2ESL7 (0-End)
      • conflict (75)
    Domains in SCOPe 2.08: d6hkuj_
  • Heterogens: GAL, GLC, SIA, GOL, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >6hkuA (A:)
nievlnlvtgpdsittielylntrmgqndeskdnygysekvtvanssdqdkptsgeipty
starinlpmlnedltsntltmweavsvktevvgvsslvnvhmatkrmyddkgigfpvegm
nfhmfavggeplelqfltgnyrtdysandklvvppikhqstqglnphykqkltkdgafpv
ecwcpdpsknentryygsytggqstppvlqftntvttvlldengvgplckgdglyvsccd
ivgflvgkdgdmqyrglpryfnillrkrtvrn

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >6hkuB (B:)
nievlnlvtgpdsittielylntrmgqndeskdnygysekvtvanssdqdkptsgeipty
starinlpmlnedltsntltmweavsvktevvgvsslvnvhmatkrmyddkgigfpvegm
nfhmfavggeplelqfltgnyrtdysandklvvppikhqstqglnphykqkltkdgafpv
ecwcpdpsknentryygsytggqstppvlqftntvttvlldengvgplckgdglyvsccd
ivgflvgkdgdmqyrglpryfnillrkrtvrn

    Sequence, based on observed residues (ATOM records): (download) 
    >6hkuB (B:)
nievlnlvtgpdsittielylntrmgqndeskdnygysekvtvanssdqdkptsgeipty
starinlpmlnntltmweavsvktevvgvsslvnvhmatkrmyddkgigfpvegmnfhmf
avggeplelqfltgnyrtdysandklvvppikhqstqglnphykqkltkdgafpvecwcp
dpsknentryygsytggqstppvlqftntvttvlldengvgplckgdglyvsccdivgfl
vgkdgdmqyrglpryfnillrkrtvrn

  • Chain 'C':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >6hkuC (C:)
nievlnlvtgpdsittielylntrmgqndeskdnygysekvtvanssdqdkptsgeipty
starinlpmlnedltsntltmweavsvktevvgvsslvnvhmatkrmyddkgigfpvegm
nfhmfavggeplelqfltgnyrtdysandklvvppikhqstqglnphykqkltkdgafpv
ecwcpdpsknentryygsytggqstppvlqftntvttvlldengvgplckgdglyvsccd
ivgflvgkdgdmqyrglpryfnillrkrtvrn

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >6hkuD (D:)
nievlnlvtgpdsittielylntrmgqndeskdnygysekvtvanssdqdkptsgeipty
starinlpmlnedltsntltmweavsvktevvgvsslvnvhmatkrmyddkgigfpvegm
nfhmfavggeplelqfltgnyrtdysandklvvppikhqstqglnphykqkltkdgafpv
ecwcpdpsknentryygsytggqstppvlqftntvttvlldengvgplckgdglyvsccd
ivgflvgkdgdmqyrglpryfnillrkrtvrn

    Sequence, based on observed residues (ATOM records): (download) 
    >6hkuD (D:)
nievlnlvtgpdsittielylntrmgqndeskdnygysekvtvanssdqdkptsgeipty
starinlpmltltmweavsvktevvgvsslvnvhmatkrmyddkgigfpvegmnfhmfav
ggeplelqfltgnyrtdysandklvvppikhqstqglnphykqkltkdgafpvecwcpdp
sknentryygsytggqstppvlqftntvttvlldengvgplckgdglyvsccdivgflvg
kdgdmqyrglpryfnillrkrtvrn

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >6hkuE (E:)
nievlnlvtgpdsittielylntrmgqndeskdnygysekvtvanssdqdkptsgeipty
starinlpmlnedltsntltmweavsvktevvgvsslvnvhmatkrmyddkgigfpvegm
nfhmfavggeplelqfltgnyrtdysandklvvppikhqstqglnphykqkltkdgafpv
ecwcpdpsknentryygsytggqstppvlqftntvttvlldengvgplckgdglyvsccd
ivgflvgkdgdmqyrglpryfnillrkrtvrn

    Sequence, based on observed residues (ATOM records): (download) 
    >6hkuE (E:)
ievlnlvtgpdsittielylntrmgqndeskdnygysekvtvanssdqdkptsgeiptys
tarinlpmlnedltsntltmweavsvktevvgvsslvnvhmatkrmyddkgigfpvegmn
fhmfavggeplelqfltgnyrtdysandklvvppikhqstqglnphykqkltkdgafpve
cwcpdpsknentryygsytggqstppvlqftntvttvlldengvgplckgdglyvsccdi
vgflvgkdgdmqyrglpryfnillrkrtvrn

  • Chain 'F':
    Sequence, based on SEQRES records: (download) 
    >6hkuF (F:)
nievlnlvtgpdsittielylntrmgqndeskdnygysekvtvanssdqdkptsgeipty
starinlpmlnedltsntltmweavsvktevvgvsslvnvhmatkrmyddkgigfpvegm
nfhmfavggeplelqfltgnyrtdysandklvvppikhqstqglnphykqkltkdgafpv
ecwcpdpsknentryygsytggqstppvlqftntvttvlldengvgplckgdglyvsccd
ivgflvgkdgdmqyrglpryfnillrkrtvrn

    Sequence, based on observed residues (ATOM records): (download) 
    >6hkuF (F:)
ievlnlvtgpdsittielylntrmgqndeskdnygysekvtvanssdqdkptsgeiptys
tarinlpmlnedltsntltmweavsvktevvgvsslvnvhmatkrmyddkgigfpvegmn
fhmfavggeplelqfltgnyrtdysandklvvppikhqstqglnphykqkltkdgafpve
cwcpdpsknentryygsytggqstppvlqftntvttvlldengvgplckgdglyvsccdi
vgflvgkdgdmqyrglpryfnillrkrtvrn

  • Chain 'G':
    Sequence, based on SEQRES records: (download) 
    >6hkuG (G:)
nievlnlvtgpdsittielylntrmgqndeskdnygysekvtvanssdqdkptsgeipty
starinlpmlnedltsntltmweavsvktevvgvsslvnvhmatkrmyddkgigfpvegm
nfhmfavggeplelqfltgnyrtdysandklvvppikhqstqglnphykqkltkdgafpv
ecwcpdpsknentryygsytggqstppvlqftntvttvlldengvgplckgdglyvsccd
ivgflvgkdgdmqyrglpryfnillrkrtvrn

    Sequence, based on observed residues (ATOM records): (download) 
    >6hkuG (G:)
ievlnlvtgpdsittielylntrmgqndeskdnygysekvtvanssdqdkptsgeiptys
tarinlpmlnedltsntltmweavsvktevvgvsslvnvhmatkrmyddkgigfpvegmn
fhmfavggeplelqfltgnyrtdysandklvvppikhqstqglnphykqkltkdgafpve
cwcpdpsknentryygsytggqstppvlqftntvttvlldengvgplckgdglyvsccdi
vgflvgkdgdmqyrglpryfnillrkrtvrn

  • Chain 'H':
    Sequence, based on SEQRES records: (download) 
    >6hkuH (H:)
nievlnlvtgpdsittielylntrmgqndeskdnygysekvtvanssdqdkptsgeipty
starinlpmlnedltsntltmweavsvktevvgvsslvnvhmatkrmyddkgigfpvegm
nfhmfavggeplelqfltgnyrtdysandklvvppikhqstqglnphykqkltkdgafpv
ecwcpdpsknentryygsytggqstppvlqftntvttvlldengvgplckgdglyvsccd
ivgflvgkdgdmqyrglpryfnillrkrtvrn

    Sequence, based on observed residues (ATOM records): (download) 
    >6hkuH (H:)
nievlnlvtgpdsittielylntrmgqndeskdnygysekvtvanssdqdkptsgeipty
starinlpmlnntltmweavsvktevvgvsslvnvhmatkrmyddkgigfpvegmnfhmf
avggeplelqfltgnyrtdysandklvvppikhqstqglnphykqkltkdgafpvecwcp
dpsknentryygsytggqstppvlqftntvttvlldengvgplckgdglyvsccdivgfl
vgkdgdmqyrglpryfnillrkrtvrn

  • Chain 'I':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >6hkuI (I:)
nievlnlvtgpdsittielylntrmgqndeskdnygysekvtvanssdqdkptsgeipty
starinlpmlnedltsntltmweavsvktevvgvsslvnvhmatkrmyddkgigfpvegm
nfhmfavggeplelqfltgnyrtdysandklvvppikhqstqglnphykqkltkdgafpv
ecwcpdpsknentryygsytggqstppvlqftntvttvlldengvgplckgdglyvsccd
ivgflvgkdgdmqyrglpryfnillrkrtvrn

  • Chain 'J':
    Sequence, based on SEQRES records: (download) 
    >6hkuJ (J:)
nievlnlvtgpdsittielylntrmgqndeskdnygysekvtvanssdqdkptsgeipty
starinlpmlnedltsntltmweavsvktevvgvsslvnvhmatkrmyddkgigfpvegm
nfhmfavggeplelqfltgnyrtdysandklvvppikhqstqglnphykqkltkdgafpv
ecwcpdpsknentryygsytggqstppvlqftntvttvlldengvgplckgdglyvsccd
ivgflvgkdgdmqyrglpryfnillrkrtvrn

    Sequence, based on observed residues (ATOM records): (download) 
    >6hkuJ (J:)
nievlnlvtgpdsittielylntrmgqndeskdnygysekvtvanssdqdkptsgeipty
starinlpmlntsntltmweavsvktevvgvsslvnvhmatkrmyddkgigfpvegmnfh
mfavggeplelqfltgnyrtdysandklvvppikhqstqglnphykqkltkdgafpvecw
cpdpsknentryygsytggqstppvlqftntvttvlldengvgplckgdglyvsccdivg
flvgkdgdmqyrglpryfnillrkrtvr