PDB entry 7kfv

View 7kfv on RCSB PDB site
Description: Structural basis for a germline-biased antibody response to SARS-CoV-2 (RBD:C1A-B12 Fab)
Class: IMMUNE SYSTEM/Viral protein
Keywords: COVID-19, SARS-CoV-2, neutralizing antibody, affinity maturation, IMMUNE SYSTEM, IMMUNE SYSTEM-Viral protein complex
Deposited on 2020-10-15, released 2020-12-02
The last revision prior to the SCOPe 2.08 freeze date was dated 2021-01-20, with a file datestamp of 2021-01-15.
Experiment type: XRAY
Resolution: 2.1 Å
R-factor: N/A
AEROSPACI score: 0.37 (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): Domains in SCOPe 2.08: d7kfva_
  • Chain 'B':
    Compound: Spike glycoprotein
    Species: Severe acute respiratory syndrome coronavirus 2 [TaxId:2697049]
    Gene: S, 2
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d7kfvb_
  • Chain 'C':
    Compound: Heavy chain of antibody C1A-B12 Fab
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 7KFV (0-224)
    Domains in SCOPe 2.08: d7kfvc_
  • Chain 'D':
    Compound: light chain of antibody C1A-B3 Fab
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 7KFV (0-213)
    Domains in SCOPe 2.08: d7kfvd1, d7kfvd2
  • Chain 'E':
    Compound: Spike glycoprotein
    Species: Severe acute respiratory syndrome coronavirus 2 [TaxId:2697049]
    Gene: S, 2
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d7kfve_
  • Chain 'F':
    Compound: Heavy chain of antibody C1A-B12 Fab
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 7KFV (0-End)
    Domains in SCOPe 2.08: d7kfvf_
  • Chain 'G':
    Compound: light chain of antibody C1A-B3 Fab
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 7KFV (0-213)
    Domains in SCOPe 2.08: d7kfvg1, d7kfvg2
  • Chain 'H':
    Compound: Heavy chain of antibody C1A-B12 Fab
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 7KFV (0-224)
    Domains in SCOPe 2.08: d7kfvh_
  • Chain 'L':
    Compound: light chain of antibody C1A-B3 Fab
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 7KFV (0-213)
    Domains in SCOPe 2.08: d7kfvl1, d7kfvl2
  • Heterogens: NAG, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >7kfvA (A:)
gsgsgrvqptesivrfpnitnlcpfgevfnatrfasvyawnrkrisncvadysvlynsas
fstfkcygvsptklndlcftnvyadsfvirgdevrqiapgqtgkiadynyklpddftgcv
iawnsnnldskvggnynylyrlfrksnlkpferdisteiyqagstpcngvegfncyfplq
sygfqptngvgyqpyrvvvlsfellhapatvcgpkkstnlvknkcvnf

    Sequence, based on observed residues (ATOM records): (download) 
    >7kfvA (A:)
nlcpfgevfnatrfasvyawnrkrisncvadysvlynsasfstfkcygvsptklndlcft
nvyadsfvirgdevrqiapgqtgkiadynyklpddftgcviawnsnnldskvggnynyly
rlfrksnlkpferdisteiyqagstpcngvegfncyfplqsygfqptngvgyqpyrvvvl
sfellhapatvcgpk

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >7kfvB (B:)
gsgsgrvqptesivrfpnitnlcpfgevfnatrfasvyawnrkrisncvadysvlynsas
fstfkcygvsptklndlcftnvyadsfvirgdevrqiapgqtgkiadynyklpddftgcv
iawnsnnldskvggnynylyrlfrksnlkpferdisteiyqagstpcngvegfncyfplq
sygfqptngvgyqpyrvvvlsfellhapatvcgpkkstnlvknkcvnf

    Sequence, based on observed residues (ATOM records): (download) 
    >7kfvB (B:)
nlcpfgevfnatrfasvyawnrkrisncvadysvlynsasfstfkcygvsptklndlcft
nvyadsfvirgdevrqiapgqtgkiadynyklpddftgcviawnsnnldskvggnynyly
rlfrksnlkpferdisteiyqagstpcngvegfncyfplqsygfqptngvgyqpyrvvvl
sfellhapatvcgpk

  • Chain 'C':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >7kfvC (C:)
evqlvesgggliqpggslrlscaasgftvssnymswvrqapgkglewvsviysggatyya
dsvkgrftisrdnskntlylqmnslraedtavyycargdvsgyrygldywgqgtlvtvsg
astkgpsvfplapsskstsggtaalgclvkdyfpepvtvswnsgaltsgvhtfpavlqss
glyslssvvtvpssslgtqtyicnvnhkpsntkvdkrvepkscdr

  • Chain 'D':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >7kfvD (D:)
diqltqspsslsasvgdrvtitcrasqgissylawyqqkpgkapklliyaastlqsgvps
rfsgsgsgtdftltisslqpedfatyycqqlisypgtfgqgtkleikrtvaapsvfifpp
sdeqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsstlt
lskadyekhkvyacevthqglsspvtksfnrgec

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >7kfvE (E:)
gsgsgrvqptesivrfpnitnlcpfgevfnatrfasvyawnrkrisncvadysvlynsas
fstfkcygvsptklndlcftnvyadsfvirgdevrqiapgqtgkiadynyklpddftgcv
iawnsnnldskvggnynylyrlfrksnlkpferdisteiyqagstpcngvegfncyfplq
sygfqptngvgyqpyrvvvlsfellhapatvcgpkkstnlvknkcvnf

    Sequence, based on observed residues (ATOM records): (download) 
    >7kfvE (E:)
nlcpfgevfnatrfasvyawnrkrisncvadysvlynsasfstfkcygvsptklndlcft
nvyadsfvirgdevrqiapgqtgkiadynyklpddftgcviawnsnnldskvggnynyly
rlfrksnlkpferdisteiyqagstpcngvegfncyfplqsygfqptngvgyqpyrvvvl
sfellhapatvcgpk

  • Chain 'F':
    Sequence, based on SEQRES records: (download) 
    >7kfvF (F:)
evqlvesgggliqpggslrlscaasgftvssnymswvrqapgkglewvsviysggatyya
dsvkgrftisrdnskntlylqmnslraedtavyycargdvsgyrygldywgqgtlvtvsg
astkgpsvfplapsskstsggtaalgclvkdyfpepvtvswnsgaltsgvhtfpavlqss
glyslssvvtvpssslgtqtyicnvnhkpsntkvdkrvepkscdr

    Sequence, based on observed residues (ATOM records): (download) 
    >7kfvF (F:)
evqlvesgggliqpggslrlscaasgftvssnymswvrqapgkglewvsviysggatyya
dsvkgrftisrdnskntlylqmnslraedtavyycargdvsgyrygldywgqgtlvtvsg
astkgpsvfplapssksgtaalgclvkdyfpepvtvswnsgaltsgvhtfpavlqssgly
slssvvtvpssslgtqtyicnvnhkpsntkvdkrvepks

  • Chain 'G':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >7kfvG (G:)
diqltqspsslsasvgdrvtitcrasqgissylawyqqkpgkapklliyaastlqsgvps
rfsgsgsgtdftltisslqpedfatyycqqlisypgtfgqgtkleikrtvaapsvfifpp
sdeqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsstlt
lskadyekhkvyacevthqglsspvtksfnrgec

  • Chain 'H':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >7kfvH (H:)
evqlvesgggliqpggslrlscaasgftvssnymswvrqapgkglewvsviysggatyya
dsvkgrftisrdnskntlylqmnslraedtavyycargdvsgyrygldywgqgtlvtvsg
astkgpsvfplapsskstsggtaalgclvkdyfpepvtvswnsgaltsgvhtfpavlqss
glyslssvvtvpssslgtqtyicnvnhkpsntkvdkrvepkscdr

  • Chain 'L':
    Sequence; same for both SEQRES and ATOM records: (download) 
    >7kfvL (L:)
diqltqspsslsasvgdrvtitcrasqgissylawyqqkpgkapklliyaastlqsgvps
rfsgsgsgtdftltisslqpedfatyycqqlisypgtfgqgtkleikrtvaapsvfifpp
sdeqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsstlt
lskadyekhkvyacevthqglsspvtksfnrgec