PDB entry 6zxn

View 6zxn on RCSB PDB site
Description: Cryo-EM structure of the SARS-CoV-2 spike protein bound to neutralizing nanobodies (Ty1)
Class: viral protein
Keywords: SARS-CoV-2, spike protein, neutralising antibody, VIRAL PROTEIN
Deposited on 2020-07-30, released 2020-09-23
The last revision prior to the SCOPe 2.08 freeze date was dated 2020-09-23, with a file datestamp of 2020-09-18.
Experiment type: EM
Resolution: 2.93 Å
R-factor: N/A
AEROSPACI score: 0.21 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Spike glycoprotein
    Species: Severe acute respiratory syndrome coronavirus 2 [TaxId:2697049]
    Gene: S, 2
    Database cross-references and differences (RAF-indexed):
    • Uniprot P0DTC2
      • conflict (985-986)
  • Chain 'B':
    Compound: Spike glycoprotein
    Species: Severe acute respiratory syndrome coronavirus 2 [TaxId:2697049]
    Gene: S, 2
    Database cross-references and differences (RAF-indexed):
    • Uniprot P0DTC2
      • conflict (985-986)
  • Chain 'C':
    Compound: Spike glycoprotein
    Species: Severe acute respiratory syndrome coronavirus 2 [TaxId:2697049]
    Gene: S, 2
    Database cross-references and differences (RAF-indexed):
    • Uniprot P0DTC2
      • conflict (985-986)
  • Chain 'D':
    Compound: Nanobody Ty1
    Species: VICUGNA PACOS [TaxId:30538]
    Database cross-references and differences (RAF-indexed):
    • PDB 6ZXN
    Domains in SCOPe 2.08: d6zxnd_
  • Chain 'E':
    Compound: Nanobody Ty1
    Species: VICUGNA PACOS [TaxId:30538]
    Database cross-references and differences (RAF-indexed):
    • PDB 6ZXN
    Domains in SCOPe 2.08: d6zxne_
  • Chain 'F':
    Compound: Nanobody Ty1
    Species: VICUGNA PACOS [TaxId:30538]
    Database cross-references and differences (RAF-indexed):
    • PDB 6ZXN
    Domains in SCOPe 2.08: d6zxnf_
  • Heterogens: NAG

PDB Chain Sequences:

  • Chain 'A':
    No sequence available.

  • Chain 'B':
    No sequence available.

  • Chain 'C':
    No sequence available.

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >6zxnD (D:)
maqvqlvetggglvqpggslrlscaasgftfssvymnwvrqapgkgpewvsrispnsgni
gytdsvkgrftisrdnakntlylqmnnlkpedtalyycaiglnlssssvrgqgtqvtvss
gglpetgghhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >6zxnD (D:)
qvqlvetggglvqpggslrlscaasgftfssvymnwvrqapgkgpewvsrispnsgnigy
tdsvkgrftisrdnakntlylqmnnlkpedtalyycaiglnlssssvrgqgtqvtvss

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >6zxnE (E:)
maqvqlvetggglvqpggslrlscaasgftfssvymnwvrqapgkgpewvsrispnsgni
gytdsvkgrftisrdnakntlylqmnnlkpedtalyycaiglnlssssvrgqgtqvtvss
gglpetgghhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >6zxnE (E:)
qvqlvetggglvqpggslrlscaasgftfssvymnwvrqapgkgpewvsrispnsgnigy
tdsvkgrftisrdnakntlylqmnnlkpedtalyycaiglnlssssvrgqgtqvtvss

  • Chain 'F':
    Sequence, based on SEQRES records: (download) 
    >6zxnF (F:)
maqvqlvetggglvqpggslrlscaasgftfssvymnwvrqapgkgpewvsrispnsgni
gytdsvkgrftisrdnakntlylqmnnlkpedtalyycaiglnlssssvrgqgtqvtvss
gglpetgghhhhhh

    Sequence, based on observed residues (ATOM records): (download) 
    >6zxnF (F:)
qvqlvetggglvqpggslrlscaasgftfssvymnwvrqapgkgpewvsrispnsgnigy
tdsvkgrftisrdnakntlylqmnnlkpedtalyycaiglnlssssvrgqgtqvtvss