PDB entry 6waq

View 6waq on RCSB PDB site
Description: Crystal structure of the SARS-CoV-1 RBD bound by the cross-reactive single-domain antibody SARS VHH-72
Class: viral protein/immune system
Keywords: SARS-CoV-1, VHH, nanobody, RBD, VIRAL PROTEIN, VIRAL PROTEIN-IMMUNE SYSTEM complex
Deposited on 2020-03-25, released 2020-04-01
The last revision prior to the SCOPe 2.08 freeze date was dated 2020-07-29, with a file datestamp of 2020-07-04.
Experiment type: XRAY
Resolution: 2.2 Å
R-factor: N/A
AEROSPACI score: 0.32 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: nanobody SARS VHH-72
    Species: Lama glama [TaxId:9844]
    Database cross-references and differences (RAF-indexed):
    • PDB 6WAQ (0-126)
    Domains in SCOPe 2.08: d6waqa1, d6waqa2
  • Chain 'B':
    Compound: Spike glycoprotein
    Species: Human SARS coronavirus [TaxId:694009]
    Gene: S, 2
    Database cross-references and differences (RAF-indexed):
    • Uniprot P59594 (Start-182)
      • expression tag (183-190)
    Domains in SCOPe 2.08: d6waqb1, d6waqb2
  • Chain 'C':
    Compound: nanobody SARS VHH-72
    Species: Lama glama [TaxId:9844]
    Database cross-references and differences (RAF-indexed):
    • PDB 6WAQ (0-End)
    Domains in SCOPe 2.08: d6waqc1, d6waqc2
  • Chain 'D':
    Compound: Spike glycoprotein
    Species: Human SARS coronavirus [TaxId:694009]
    Gene: S, 2
    Database cross-references and differences (RAF-indexed):
    • Uniprot P59594 (0-182)
      • expression tag (183)
    Domains in SCOPe 2.08: d6waqd1, d6waqd2
  • Heterogens: NAG, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >6waqA (A:)
qvqlqesggglvqaggslrlscaasgrtfseyamgwfrqapgkerefvatiswsggstyy
tdsvkgrftisrdnakntvylqmnslkpddtavyycaaaglgtvvsewdydydywgqgtq
vtvssgs

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >6waqB (B:)
tnlcpfgevfnatkfpsvyawerkkisncvadysvlynstffstfkcygvsatklndlcf
snvyadsfvvkgddvrqiapgqtgviadynyklpddfmgcvlawntrnidatstgnynyk
yrylrhgklrpferdisnvpfspdgkpctppalncywplndygfytttgigyqpyrvvvl
sfegslevlfq

    Sequence, based on observed residues (ATOM records): (download) 
    >6waqB (B:)
nlcpfgevfnatkfpsvyawerkkisncvadysvlynstffstfkcygvsatklndlcfs
nvyadsfvvkgddvrqiapgqtgviadynyklpddfmgcvlawntrnidatstgnynyky
rylrhgklrpferdisnvpfspdgkpctppalncywplndygfytttgigyqpyrvvvls
fegslevlfq

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >6waqC (C:)
qvqlqesggglvqaggslrlscaasgrtfseyamgwfrqapgkerefvatiswsggstyy
tdsvkgrftisrdnakntvylqmnslkpddtavyycaaaglgtvvsewdydydywgqgtq
vtvssgs

    Sequence, based on observed residues (ATOM records): (download) 
    >6waqC (C:)
qvqlqesggglvqaggslrlscaasgrtfseyamgwfrqapgkerefvatiswsggstyy
tdsvkgrftisrdnakntvylqmnslkpddtavyycaaaglgtvvsewdydydywgqgtq
vtvss

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >6waqD (D:)
tnlcpfgevfnatkfpsvyawerkkisncvadysvlynstffstfkcygvsatklndlcf
snvyadsfvvkgddvrqiapgqtgviadynyklpddfmgcvlawntrnidatstgnynyk
yrylrhgklrpferdisnvpfspdgkpctppalncywplndygfytttgigyqpyrvvvl
sfegslevlfq

    Sequence, based on observed residues (ATOM records): (download) 
    >6waqD (D:)
tnlcpfgevfnatkfpsvyawerkkisncvadysvlynstffstfkcygvsatklndlcf
snvyadsfvvkgddvrqiapgqtgviadynyklpddfmgcvlawntrnidatstgnynyk
yrylrhgklrpferdisnvpfspdgkpctppalncywplndygfytttgigyqpyrvvvl
sfeg