PDB entry 7nx6

View 7nx6 on RCSB PDB site
Description: Crystal structure of the receptor binding domain of SARS-CoV-2 Spike glycoprotein in complex with COVOX-222 and EY6A Fabs
Class: viral protein/immune system
Keywords: SARS-CoV-2 B.1.1.7 variant, B.1.351 variant, P.1 variant, antibody, receptor-binding-domain, spike, neutralisation, VIRAL PROTEIN/IMMUNE SYSTEM, VIRAL PROTEIN, IMMUNE SYSTEM, VIRAL PROTEIN-IMMUNE SYSTEM complex
Deposited on 2021-03-17, released 2021-04-07
The last revision prior to the SCOPe 2.08 freeze date was dated 2021-06-09, with a file datestamp of 2021-06-04.
Experiment type: XRAY
Resolution: 2.25 Å
R-factor: N/A
AEROSPACI score: 0.34 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: COVOX-222 Fab heavy chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 7NX6 (0-End)
    Domains in SCOPe 2.08: d7nx6a_
  • Chain 'B':
    Compound: COVOX-222 Fab light chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 7NX6 (0-End)
    Domains in SCOPe 2.08: d7nx6b1, d7nx6b2
  • Chain 'E':
    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: d7nx6e_
  • Chain 'H':
    Compound: EY6A Fab heavy chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 7NX6 (0-End)
    Domains in SCOPe 2.08: d7nx6h_
  • Chain 'L':
    Compound: EY6A Fab light chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 7NX6 (0-End)
    Domains in SCOPe 2.08: d7nx6l1, d7nx6l2
  • Heterogens: CL, SO4, GOL, NAG, HOH

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >7nx6A (A:)
evqlvesgggliqpggslrlscaasgltvssnymswvrqapgkglewvsviysggstfya
dsvkgrftisrdnskntlylqmnslgaedtavyycargegspgnwfdpwgqgtlvtvssa
stkgpsvfplapsskstsggtaalgclvkdyfpepvtvswnsgaltsgvhtfpavlqssg
lyslssvvtvpssslgtqtyicnvnhkpsntkvdkkvepkscdk

    Sequence, based on observed residues (ATOM records): (download) 
    >7nx6A (A:)
evqlvesgggliqpggslrlscaasgltvssnymswvrqapgkglewvsviysggstfya
dsvkgrftisrdnskntlylqmnslgaedtavyycargegspgnwfdpwgqgtlvtvssa
stkgpsvfplapsgtaalgclvkdyfpepvtvswnsgaltsgvhtfpavlqssglyslss
vvtvpssslgtqtyicnvnhkpsntkvdkkvepk

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >7nx6B (B:)
dvvmtqspgtlslspgeratlscrasqsvpssylawyqqkpgqaprlliygastratgip
drfsgsgsgtdftltisrlepedfavyycqhydtsprfgggtkvdikrtvaapsvfifpp
sdeqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsstlt
lskadyekhkvyacevthqglsspvtksfnrgec

    Sequence, based on observed residues (ATOM records): (download) 
    >7nx6B (B:)
dvvmtqspgtlslspgeratlscrasqsvpssylawyqqkpgqaprlliygastratgip
drfsgsgsgtdftltisrlepedfavyycqhydtsprfgggtkvdikrtvaapsvfifpp
sdeqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsstlt
lskadyekhkvyacevthqglsspvtksfnrge

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >7nx6E (E:)
etghhhhhhtnlcpfgevfnatrfasvyawnrkrisncvadysvlynsasfstfkcygvs
ptklndlcftnvyadsfvirgdevrqiapgqtgkiadynyklpddftgcviawnsnnlds
kvggnynylyrlfrksnlkpferdisteiyqagstpcngvegfncyfplqsygfqptngv
gyqpyrvvvlsfellhapatvcgkk

    Sequence, based on observed residues (ATOM records): (download) 
    >7nx6E (E:)
nlcpfgevfnatrfasvyawnrkrisncvadysvlynsasfstfkcygvsptklndlcft
nvyadsfvirgdevrqiapgqtgkiadynyklpddftgcviawnsnnldskvggnynyly
rlfrksnlkpferdisteiyqagstpcngvegfncyfplqsygfqptngvgyqpyrvvvl
sfellhapatvcg

  • Chain 'H':
    Sequence, based on SEQRES records: (download) 
    >7nx6H (H:)
evqlvesgggvvqpgrslrlscaasaftfssydmhwvrqapgkglewvavisydgsnkyy
adsvkgrftisrdnskntlylqmnslraedtavyycakdggklwvyyfdywgqgtlvtvs
sastkgpsvfplapsskstsggtaalgclvkdyfpepvtvswnsgaltsgvhtfpavlqs
sglyslssvvtvpssslgtqtyicnvnhkpsntkvdkrvepkscdk

    Sequence, based on observed residues (ATOM records): (download) 
    >7nx6H (H:)
evqlvesgggvvqpgrslrlscaasaftfssydmhwvrqapgkglewvavisydgsnkyy
adsvkgrftisrdnskntlylqmnslraedtavyycakdggklwvyyfdywgqgtlvtvs
sastkgpsvfplapsgtaalgclvkdyfpepvtvswnsgaltsgvhtfpavlqssglysl
ssvvtvpssslgtqtyicnvnhkpsntkvdkrvep

  • Chain 'L':
    Sequence, based on SEQRES records: (download) 
    >7nx6L (L:)
diqmtqspsslsasvgdrvtitcrasqsissylnwyqqkpgkapklliyaasslqsgvps
rfsgsgsgtdftltisslqpedfatyycqqsystlaltfgggtkveikrtvaapsvfifp
psdeqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsstl
tlskadyekhkvyacevthqglsspvtksfnrgec

    Sequence, based on observed residues (ATOM records): (download) 
    >7nx6L (L:)
diqmtqspsslsasvgdrvtitcrasqsissylnwyqqkpgkapklliyaasslqsgvps
rfsgsgsgtdftltisslqpedfatyycqqsystlaltfgggtkveikrtvaapsvfifp
psdeqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsstl
tlskadyekhkvyacevthqglsspvtksfnrge