PDB entry 5cq0

View 5cq0 on RCSB PDB site
Description: Crystal structure of murine polyomavirus RA strain VP1 in complex with the GD1a glycan
Class: viral protein
Keywords: Murine Polyomavirus, Virus protein, carbohydrate complex, virus-host interaction, viral protein
Deposited on 2015-07-21, released 2015-10-28
The last revision prior to the SCOPe 2.06 freeze date was dated 2015-10-28, with a file datestamp of 2015-10-23.
Experiment type: XRAY
Resolution: 1.9 Å
R-factor: N/A
AEROSPACI score: 0.34 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Capsid protein VP1
    Species: Murine polyomavirus (strain P16 small-plaque) [TaxId:47935]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d5cq0a_
  • Chain 'B':
    Compound: Capsid protein VP1
    Species: Murine polyomavirus (strain P16 small-plaque) [TaxId:47935]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d5cq0b_
  • Chain 'C':
    Compound: Capsid protein VP1
    Species: Murine polyomavirus (strain P16 small-plaque) [TaxId:47935]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d5cq0c_
  • Chain 'D':
    Compound: Capsid protein VP1
    Species: Murine polyomavirus (strain P16 small-plaque) [TaxId:47935]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d5cq0d_
  • Chain 'E':
    Compound: Capsid protein VP1
    Species: Murine polyomavirus (strain P16 small-plaque) [TaxId:47935]
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.06: d5cq0e_
  • Heterogens: SO4, GOL, SIA, GAL, NGA, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >5cq0A (A:)
gmevldlvtgpdsvteieaflnprmgqpptpeslteggqyygwsrginlatsdtedspgn
ntlptwsmaklqlpmlnedltcdtlqmweavsvktevvgsgslldvhgfnkptdtvntkg
istpvegsqyhvfavggepldlqglvtdartkykeegvvtiktitkkdmvnkdqvlnpis
kakldkdgmypveiwhpdpaknentryfgnytggtttppvlqftntlttvlldengvgpl
ckgeglylscvdimgwrvtrnydvhhwrglpryfkitlrkrwvk

    Sequence, based on observed residues (ATOM records): (download) 
    >5cq0A (A:)
gmevldlvtgpdsvteieaflnprmgqpptpeslteggqyygwsrginlatsdtedspgn
ntlptwsmaklqlpmlntcdtlqmweavsvktevvgsgslldvhgfnkptdtvntkgist
pvegsqyhvfavggepldlqglvtdartkykeegvvtiktitkkdmvnkdqvlnpiskak
ldkdgmypveiwhpdpaknentryfgnytggtttppvlqftntlttvlldengvgplckg
eglylscvdimgwrvtrnydvhhwrglpryfkitlrkrwvk

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >5cq0B (B:)
gmevldlvtgpdsvteieaflnprmgqpptpeslteggqyygwsrginlatsdtedspgn
ntlptwsmaklqlpmlnedltcdtlqmweavsvktevvgsgslldvhgfnkptdtvntkg
istpvegsqyhvfavggepldlqglvtdartkykeegvvtiktitkkdmvnkdqvlnpis
kakldkdgmypveiwhpdpaknentryfgnytggtttppvlqftntlttvlldengvgpl
ckgeglylscvdimgwrvtrnydvhhwrglpryfkitlrkrwvk

    Sequence, based on observed residues (ATOM records): (download) 
    >5cq0B (B:)
gmevldlvtgpdsvteieaflnprmgqpptpeslteggqyygwsrginlatsdtedspgn
ntlptwsmaklqlpmlndtlqmweavsvktevvgsgslldvhgfnkptdtvntkgistpv
egsqyhvfavggepldlqglvtdartkykeegvvtiktitkkdmvnkdqvlnpiskakld
kdgmypveiwhpdpaknentryfgnytggtttppvlqftntlttvlldengvgplckgeg
lylscvdimgwrvtrnydvhhwrglpryfkitlrkrwvk

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >5cq0C (C:)
gmevldlvtgpdsvteieaflnprmgqpptpeslteggqyygwsrginlatsdtedspgn
ntlptwsmaklqlpmlnedltcdtlqmweavsvktevvgsgslldvhgfnkptdtvntkg
istpvegsqyhvfavggepldlqglvtdartkykeegvvtiktitkkdmvnkdqvlnpis
kakldkdgmypveiwhpdpaknentryfgnytggtttppvlqftntlttvlldengvgpl
ckgeglylscvdimgwrvtrnydvhhwrglpryfkitlrkrwvk

    Sequence, based on observed residues (ATOM records): (download) 
    >5cq0C (C:)
gmevldlvtgpdsvteieaflnprmgqpptpeslteggqyygwsrginlatsdtedspgn
ntlptwsmaklqlpmlntlqmweavsvktevvgsgslldvhgfnkptdtvntkgistpve
gsqyhvfavggepldlqglvtdartkykeegvvtiktitkkdmvnkdqvlnpiskakldk
dgmypveiwhpdpaknentryfgnytggtttppvlqftntlttvlldengvgplckgegl
ylscvdimgwrvtrnydvhhwrglpryfkitlrkrwvk

  • Chain 'D':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >5cq0D (D:)
gmevldlvtgpdsvteieaflnprmgqpptpeslteggqyygwsrginlatsdtedspgn
ntlptwsmaklqlpmlnedltcdtlqmweavsvktevvgsgslldvhgfnkptdtvntkg
istpvegsqyhvfavggepldlqglvtdartkykeegvvtiktitkkdmvnkdqvlnpis
kakldkdgmypveiwhpdpaknentryfgnytggtttppvlqftntlttvlldengvgpl
ckgeglylscvdimgwrvtrnydvhhwrglpryfkitlrkrwvk

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >5cq0E (E:)
gmevldlvtgpdsvteieaflnprmgqpptpeslteggqyygwsrginlatsdtedspgn
ntlptwsmaklqlpmlnedltcdtlqmweavsvktevvgsgslldvhgfnkptdtvntkg
istpvegsqyhvfavggepldlqglvtdartkykeegvvtiktitkkdmvnkdqvlnpis
kakldkdgmypveiwhpdpaknentryfgnytggtttppvlqftntlttvlldengvgpl
ckgeglylscvdimgwrvtrnydvhhwrglpryfkitlrkrwvk

    Sequence, based on observed residues (ATOM records): (download) 
    >5cq0E (E:)
gmevldlvtgpdsvteieaflnprmgqpptpeslteggqyygwsrginlatsdtedspgn
ntlptwsmaklqlpmlntlqmweavsvktevvgsgslldvhgfnkptdtvntkgistpve
gsqyhvfavggepldlqglvtdartkykeegvvtiktitkkdmvnkdqvlnpiskakldk
dgmypveiwhpdpaknentryfgnytggtttppvlqftntlttvlldengvgplckgegl
ylscvdimgwrvtrnydvhhwrglpryfkitlrkrwvk