PDB entry 7det

View 7det on RCSB PDB site
Description: Crystal structure of SARS-CoV-2 RBD in complex with a neutralizing antibody scFv
Class: viral protein/antiviral protein
Keywords: SARS-CoV-2, RBD, antibody, VIRAL PROTEIN, ANTIVIRAL PROTEIN, VIRAL PROTEIN-ANTIVIRAL PROTEIN complex
Deposited on 2020-11-05, released 2021-03-31
The last revision prior to the SCOPe 2.08 freeze date was dated 2021-05-26, with a file datestamp of 2021-05-21.
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: Spike protein S1
    Species: Severe acute respiratory syndrome coronavirus 2 [TaxId:2697049]
    Gene: S, 2
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d7deta_
  • Chain 'B':
    Compound: antibody scFv
    Species: Mus musculus [TaxId:10090]
    Database cross-references and differences (RAF-indexed):
    • PDB 7DET
    Domains in SCOPe 2.08: d7detb1, d7detb2
  • Chain 'C':
    Compound: Spike protein S1
    Species: Severe acute respiratory syndrome coronavirus 2 [TaxId:2697049]
    Gene: S, 2
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d7detc_
  • Chain 'D':
    Compound: antibody scFv
    Species: Mus musculus [TaxId:10090]
    Database cross-references and differences (RAF-indexed):
    • PDB 7DET
    Domains in SCOPe 2.08: d7detd1, d7detd2
  • Heterogens: NAG, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download)
    >7detA (A:)
    nlcpfgevfnatrfasvyawnrkrisncvadysvlynsasfstfkcygvsptklndlcft
    nvyadsfvirgdevrqiapgqtgkiadynyklpddftgcviawnsnnldskvggnynyly
    rlfrksnlkpferdisteiyqagstpcngvegfncyfplqsygfqptngvgyqpyrvvvl
    sfellhapatvcgpkksaaahhhhhh
    

    Sequence, based on observed residues (ATOM records): (download)
    >7detA (A:)
    lcpfgevfnatrfasvyawnrkrisncvadysvlynsasfstfkcygvsptklndlcftn
    vyadsfvirgdevrqiapgqtgkiadynyklpddftgcviawnsnnldskvggnynylyr
    lfrksnlkpferdisteiyqagstpcngvegfncyfplqsygfqptngvgyqpyrvvvls
    fellhapatvcgp
    

  • Chain 'B':
    Sequence, based on SEQRES records: (download)
    >7detB (B:)
    mkflvnvalvfmvvyisyiyadgsqvqlvqsgaevkkpgasvklsckasgysftsywvnw
    vrqapgqglewigmihpsdsetrlnqkfkdrvtitvdkststaymelsslrsedtavyyc
    aradgyewyfdvwgrgtlvtvssggggsggggsggggsdivltqspaslavspgqratit
    crasesvdsygnsfmhwyqqkpgqppklliyrasnlesgiparfsgsgsgtdftltinpv
    eandvanyycqqsnedpwtfgqgtkveikaaahhhhhhhh
    

    Sequence, based on observed residues (ATOM records): (download)
    >7detB (B:)
    qvqlvqsgaevkkpgasvklsckasgysftsywvnwvrqapgqglewigmihpsdsetrl
    nqkfkdrvtitvdkststaymelsslrsedtavyycaradgyewyfdvwgrgtlvtvsss
    divltqspaslavspgqratitcrasesvdsygnsfmhwyqqkpgqppklliyrasnles
    giparfsgsgsgtdftltinpveandvanyycqqsnedpwtfgqgtkveik
    

  • Chain 'C':
    Sequence, based on SEQRES records: (download)
    >7detC (C:)
    nlcpfgevfnatrfasvyawnrkrisncvadysvlynsasfstfkcygvsptklndlcft
    nvyadsfvirgdevrqiapgqtgkiadynyklpddftgcviawnsnnldskvggnynyly
    rlfrksnlkpferdisteiyqagstpcngvegfncyfplqsygfqptngvgyqpyrvvvl
    sfellhapatvcgpkksaaahhhhhh
    

    Sequence, based on observed residues (ATOM records): (download)
    >7detC (C:)
    nlcpfgevfnatrfasvyawnrkrisncvadysvlynsasfstfkcygvsptklndlcft
    nvyadsfvirgdevrqiapgqtgkiadynyklpddftgcviawnsnnldskvggnynyly
    rlfrksnlkpferdisteiyqagstpcngvegfncyfplqsygfqptngvgyqpyrvvvl
    sfellhapatvcgp
    

  • Chain 'D':
    Sequence, based on SEQRES records: (download)
    >7detD (D:)
    mkflvnvalvfmvvyisyiyadgsqvqlvqsgaevkkpgasvklsckasgysftsywvnw
    vrqapgqglewigmihpsdsetrlnqkfkdrvtitvdkststaymelsslrsedtavyyc
    aradgyewyfdvwgrgtlvtvssggggsggggsggggsdivltqspaslavspgqratit
    crasesvdsygnsfmhwyqqkpgqppklliyrasnlesgiparfsgsgsgtdftltinpv
    eandvanyycqqsnedpwtfgqgtkveikaaahhhhhhhh
    

    Sequence, based on observed residues (ATOM records): (download)
    >7detD (D:)
    qvqlvqsgaevkkpgasvklsckasgysftsywvnwvrqapgqglewigmihpsdsetrl
    nqkfkdrvtitvdkststaymelsslrsedtavyycaradgyewyfdvwgrgtlvtvsss
    divltqspaslavspgqratitcrasesvdsygnsfmhwyqqkpgqppklliyrasnles
    giparfsgsgsgtdftltinpveandvanyycqqsnedpwtfgqgtkveik