PDB entry 5o04

View 5o04 on RCSB PDB site
Description: GII.10 Vietnam 026 norovirus protruding domain in complex with Nanobody Nano-26 and Nano-85
Class: viral protein
Keywords: Norovirus, Protruding domain, capsid, VHH, Nanobody Nanobody (VHH) Nano-4, Viral protein
Deposited on 2017-05-16, released 2017-10-04
The last revision prior to the SCOPe 2.07 freeze date was dated 2017-11-15, with a file datestamp of 2017-11-10.
Experiment type: XRAY
Resolution: 2.3 Å
R-factor: N/A
AEROSPACI score: 0.24 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: capsid protein
    Species: Norwalk virus [TaxId:11983]
    Database cross-references and differences (RAF-indexed):
  • Chain 'B':
    Compound: capsid protein
    Species: Norwalk virus [TaxId:11983]
    Database cross-references and differences (RAF-indexed):
  • Chain 'C':
    Compound: Nanobody (VHH) Nano-85
    Species: VICUGNA PACOS [TaxId:30538]
    Database cross-references and differences (RAF-indexed):
    • PDB 5O04 (0-End)
    Domains in SCOPe 2.07: d5o04c1, d5o04c2
  • Chain 'D':
    Compound: Nanobody (VHH) Nano-85
    Species: VICUGNA PACOS [TaxId:30538]
    Database cross-references and differences (RAF-indexed):
    • PDB 5O04 (0-End)
    Domains in SCOPe 2.07: d5o04d1, d5o04d2
  • Chain 'E':
    Compound: Nanobody (VHH) Nano-26
    Species: VICUGNA PACOS [TaxId:30538]
    Database cross-references and differences (RAF-indexed):
    • PDB 5O04 (0-End)
    Domains in SCOPe 2.07: d5o04e1, d5o04e2
  • Chain 'F':
    Compound: Nanobody (VHH) Nano-26
    Species: VICUGNA PACOS [TaxId:30538]
    Database cross-references and differences (RAF-indexed):
    • PDB 5O04 (0-End)
    Domains in SCOPe 2.07: d5o04f1, d5o04f2
  • Heterogens: EDO, HOH

PDB Chain Sequences:

  • Chain 'A':
    No sequence available.

  • Chain 'B':
    No sequence available.

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >5o04C (C:)
qvqlqesggglvqpggslrlscaasgsifsiyamgwyrqapgkqrelvasissgggtnya
dsvkgrftisgdnakntvylqmnslkpedtavyyckredysayappsgsrgrgtqvtvss
hhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >5o04C (C:)
qvqlqesggglvqpggslrlscaasgsifsiyamgwyrqgkqrelvasissgggtnyads
vkgrftisgdnakntvylqmnslkpedtavyyckredysayappsgsrgrgtqvtvsshh
h

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >5o04D (D:)
qvqlqesggglvqpggslrlscaasgsifsiyamgwyrqapgkqrelvasissgggtnya
dsvkgrftisgdnakntvylqmnslkpedtavyyckredysayappsgsrgrgtqvtvss
hhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >5o04D (D:)
qvqlqesggglvqpggslrlscaasgsifsiyamgwyrqapgkqrelvasissgggtnya
dsvkgrftisgdnakntvylqmnslkpedtavyyckredysayappsgsrgrgtqvtvs

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >5o04E (E:)
qvqlqesggglvqpggslrlsctapriiffmydvgwyrqapekqrelvaqinsdvstkya
dsvkgrftisrdnakrtvylqmndlkpedaavyycnvrrasadywgqgtqvtvss

    Sequence, based on observed residues (ATOM records): (download) 
    >5o04E (E:)
qvqlqesggglvqpslrlsctapriiffmydvgwyrqapekqrelvaqinsdvstkyads
vkgrftisrdnakrtvylqmndlkpedaavyycnvrrasadywgqgtqvtvs

  • Chain 'F':
    Sequence, based on SEQRES records: (download) 
    >5o04F (F:)
qvqlqesggglvqpggslrlsctapriiffmydvgwyrqapekqrelvaqinsdvstkya
dsvkgrftisrdnakrtvylqmndlkpedaavyycnvrrasadywgqgtqvtvss

    Sequence, based on observed residues (ATOM records): (download) 
    >5o04F (F:)
qvqlqesglvqpslrlsctapriiffmydvgwyrrelvaqinsdvstkyadsvkgrftis
rdnakrtvylqmndlkpedaavyycnvrrasadywgqgtqv