PDB entry 7l56

View 7l56 on RCSB PDB site
Description: cryo-em structure of the sars-cov-2 spike glycoprotein bound to fab 2- 43
Deposited on 2020-12-21, released 2021-04-14
The last revision was dated 2021-04-21, with a file datestamp of 2021-04-16.
Experiment type: EM
Resolution: 3.6 Å
R-factor: N/A
AEROSPACI score: 0.16 (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
      • engineered mutation (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
      • engineered mutation (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
      • engineered mutation (985-986)
  • Chain 'F':
    Compound: Fab 2-43 variable domain heavy chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 7L56 (0-128)
  • Chain 'G':
    Compound: Fab 2-43 variable domain light chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 7L56 (0-108)
  • Chain 'H':
    Compound: Fab 2-43 variable domain heavy chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 7L56 (0-128)
  • Chain 'J':
    Compound: Fab 2-43 variable domain heavy chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 7L56 (0-128)
  • Chain 'K':
    Compound: Fab 2-43 variable domain light chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 7L56 (0-108)
  • Chain 'L':
    Compound: Fab 2-43 variable domain light chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 7L56 (0-108)
  • Heterogens: NAG

PDB Chain Sequences:
This PDB entry is not classified in SCOPe 2.08, so the chain sequences below are not included in the ASTRAL sequence sets.

  • Chain 'A':
    Sequence, based on SEQRES records:
    >7l56A (A:)
mfvflvllplvssqcvnlttrtqlppaytnsftrgvyypdkvfrssvlhstqdlflpffs
nvtwfhaihvsgtngtkrfdnpvlpfndgvyfasteksniirgwifgttldsktqslliv
nnatnvvikvcefqfcndpflgvyyhknnkswmesefrvyssannctfeyvsqpflmdle
gkqgnfknlrefvfknidgyfkiyskhtpinlvrdlpqgfsaleplvdlpiginitrfqt
llalhrsyltpgdsssgwtagaaayyvgylqprtfllkynengtitdavdcaldplsetk
ctlksftvekgiyqtsnfrvqptesivrfpnitnlcpfgevfnatrfasvyawnrkrisn
cvadysvlynsasfstfkcygvsptklndlcftnvyadsfvirgdevrqiapgqtgkiad
ynyklpddftgcviawnsnnldskvggnynylyrlfrksnlkpferdisteiyqagstpc
ngvegfncyfplqsygfqptngvgyqpyrvvvlsfellhapatvcgpkkstnlvknkcvn
fnfngltgtgvltesnkkflpfqqfgrdiadttdavrdpqtleilditpcsfggvsvitp
gtntsnqvavlyqdvnctevpvaihadqltptwrvystgsnvfqtragcligaehvnnsy
ecdipigagicasyqtqtnspgsassvasqsiiaytmslgaensvaysnnsiaiptnfti
svtteilpvsmtktsvdctmyicgdstecsnlllqygsfctqlnraltgiaveqdkntqe
vfaqvkqiyktppikdfggfnfsqilpdpskpskrsfiedllfnkvtladagfikqygdc
lgdiaardlicaqkfngltvlpplltdemiaqytsallagtitsgwtfgagaalqipfam
qmayrfngigvtqnvlyenqklianqfnsaigkiqdslsstasalgklqdvvnqnaqaln
tlvkqlssnfgaissvlndilsrldppeaevqidrlitgrlqslqtyvtqqliraaeira
sanlaatkmsecvlgqskrvdfcgkgyhlmsfpqsaphgvvflhvtyvpaqeknfttapa
ichdgkahfpregvfvsngthwfvtqrnfyepqiittdntfvsgncdvvigivnntvydp
lqpeldsfkeeldkyfknhtspdvdlgdisginasvvniqkeidrlnevaknlneslidl
qelgkyeqgsgyipeaprdgqayvrkdgewvllstflgrslevlfqgpghhhhhhhhsaw
shpqfekgggsggggsggsawshpqfek

    Sequence, based on observed residues (ATOM records):
    >7l56A (A:)
aytnsftrgvyypdkvfrssvlhstqdlflpffsnvtwfhaihdnpvlpfndgvyfaste
ksniirgwifgttlqsllivnnatnvvikvcefqfcndpflctfeyvsqknlrefvfkni
dgyfkiyskhtpidlpqgfsaleplvdlpitrfqtllaaayyvgylqprtfllkynengt
itdavdcaldplsetkctlksftvekgiyqtsnfrvqptesivrfpnitnlcpfgevfna
trfasvyawnrkrisncvadysvlynsasfstfkcygvsptklndlcftnvyadsfvirg
devrqiapgqtgkiadynyklpddftgcviawnsnnldskvggnynylyrlfrksnlkpf
erdisteiyqagstpcngvegfncyfplqsygfqptngvgyqpyrvvvlsfellhapatv
cgpkkstnlvknkcvnfnfngltgtgvltesnkkflpfqqfgrdiadttdavrdpqtlei
lditpcsfggvsvitpgtntsnqvavlyqdvnctevsnvfqtragcligaehvnnsyecd
ipigagicasyqtqsiiaytmslgaensvaysnnsiaiptnftisvtteilpvsmtktsv
dctmyicgdstecsnlllqygsfctqlnraltgiaveqdkntqevfaqvkqiyktppikd
fggfnfsqilpdpskpskrsfiedllfnkvtlkfngltvlpplltdemiaqytsallagt
itsgwtfgagaalqipfamqmayrfngigvtqnvlyenqklianqfnsaigkiqdslsst
asalgklqdvvnqnaqalntlvkqlssnfgaissvlndilsrldppeaevqidrlitgrl
qslqtyvtqqliraaeirasanlaatkmsecvlgqskrvdfcgkgyhlmsfpqsaphgvv
flhvtyvpaqeknfttapaichdgkahfpregvfvsngthwfvtqrnfyepqiittdntf
vsgncdvvigivnntvydplqpe

  • Chain 'B':
    Sequence, based on SEQRES records:
    >7l56B (B:)
mfvflvllplvssqcvnlttrtqlppaytnsftrgvyypdkvfrssvlhstqdlflpffs
nvtwfhaihvsgtngtkrfdnpvlpfndgvyfasteksniirgwifgttldsktqslliv
nnatnvvikvcefqfcndpflgvyyhknnkswmesefrvyssannctfeyvsqpflmdle
gkqgnfknlrefvfknidgyfkiyskhtpinlvrdlpqgfsaleplvdlpiginitrfqt
llalhrsyltpgdsssgwtagaaayyvgylqprtfllkynengtitdavdcaldplsetk
ctlksftvekgiyqtsnfrvqptesivrfpnitnlcpfgevfnatrfasvyawnrkrisn
cvadysvlynsasfstfkcygvsptklndlcftnvyadsfvirgdevrqiapgqtgkiad
ynyklpddftgcviawnsnnldskvggnynylyrlfrksnlkpferdisteiyqagstpc
ngvegfncyfplqsygfqptngvgyqpyrvvvlsfellhapatvcgpkkstnlvknkcvn
fnfngltgtgvltesnkkflpfqqfgrdiadttdavrdpqtleilditpcsfggvsvitp
gtntsnqvavlyqdvnctevpvaihadqltptwrvystgsnvfqtragcligaehvnnsy
ecdipigagicasyqtqtnspgsassvasqsiiaytmslgaensvaysnnsiaiptnfti
svtteilpvsmtktsvdctmyicgdstecsnlllqygsfctqlnraltgiaveqdkntqe
vfaqvkqiyktppikdfggfnfsqilpdpskpskrsfiedllfnkvtladagfikqygdc
lgdiaardlicaqkfngltvlpplltdemiaqytsallagtitsgwtfgagaalqipfam
qmayrfngigvtqnvlyenqklianqfnsaigkiqdslsstasalgklqdvvnqnaqaln
tlvkqlssnfgaissvlndilsrldppeaevqidrlitgrlqslqtyvtqqliraaeira
sanlaatkmsecvlgqskrvdfcgkgyhlmsfpqsaphgvvflhvtyvpaqeknfttapa
ichdgkahfpregvfvsngthwfvtqrnfyepqiittdntfvsgncdvvigivnntvydp
lqpeldsfkeeldkyfknhtspdvdlgdisginasvvniqkeidrlnevaknlneslidl
qelgkyeqgsgyipeaprdgqayvrkdgewvllstflgrslevlfqgpghhhhhhhhsaw
shpqfekgggsggggsggsawshpqfek

    Sequence, based on observed residues (ATOM records):
    >7l56B (B:)
ytnsftrgvyypdkvfrssvlhstqdlflpffsnvtwfhaidnpvlpfndgvyfasteks
niirgwifgttldsktqsllivnnatnvvikvcefqfcndpflfrvyssannctfeyvsk
nlrefvfknidgyfkiyskhtpidlpqgfsaleplvdlpiitrfqtllaaayyvgylqpr
tfllkynengtitdavdcaldplsetkctlksftvekgiyqtsnfrvqptesivrfpnit
nlcpfgevfnatrfasvyawnrkrisncvadysvlynsasfstfkcygvsptklndlcft
nvyadsfvirgdevrqiapgqtgkiadynyklpddftgcviawnsnnldskvggnynyly
rlfrksnlkpferdisteiyqagstpcngvegfncyfplqsygfqptngvgyqpyrvvvl
sfellhapatvcgpkkstnlvknkcvnfnfngltgtgvltesnkkflpfqqfgrdiadtt
davrdpqtleilditpcsfggvsvitpgtntsnqvavlyqdvnctevnvfqtragcliga
ehvnnsyecdipigagicasyqtqsiiaytmslgaensvaysnnsiaiptnftisvttei
lpvsmtktsvdctmyicgdstecsnlllqygsfctqlnraltgiaveqdkntqevfaqvk
qiyktppikdfggfnfsqilpdpskpskrsfiedllfnkvtlfngltvlpplltdemiaq
ytsallagtitsgwtfgagaalqipfamqmayrfngigvtqnvlyenqklianqfnsaig
kiqdslsstasalgklqdvvnqnaqalntlvkqlssnfgaissvlndilsrldppeaevq
idrlitgrlqslqtyvtqqliraaeirasanlaatkmsecvlgqskrvdfcgkgyhlmsf
pqsaphgvvflhvtyvpaqeknfttapaichdgkahfpregvfvsngthwfvtqrnfyep
qiittdntfvsgncdvvigivnntvydplqpe

  • Chain 'C':
    Sequence, based on SEQRES records:
    >7l56C (C:)
mfvflvllplvssqcvnlttrtqlppaytnsftrgvyypdkvfrssvlhstqdlflpffs
nvtwfhaihvsgtngtkrfdnpvlpfndgvyfasteksniirgwifgttldsktqslliv
nnatnvvikvcefqfcndpflgvyyhknnkswmesefrvyssannctfeyvsqpflmdle
gkqgnfknlrefvfknidgyfkiyskhtpinlvrdlpqgfsaleplvdlpiginitrfqt
llalhrsyltpgdsssgwtagaaayyvgylqprtfllkynengtitdavdcaldplsetk
ctlksftvekgiyqtsnfrvqptesivrfpnitnlcpfgevfnatrfasvyawnrkrisn
cvadysvlynsasfstfkcygvsptklndlcftnvyadsfvirgdevrqiapgqtgkiad
ynyklpddftgcviawnsnnldskvggnynylyrlfrksnlkpferdisteiyqagstpc
ngvegfncyfplqsygfqptngvgyqpyrvvvlsfellhapatvcgpkkstnlvknkcvn
fnfngltgtgvltesnkkflpfqqfgrdiadttdavrdpqtleilditpcsfggvsvitp
gtntsnqvavlyqdvnctevpvaihadqltptwrvystgsnvfqtragcligaehvnnsy
ecdipigagicasyqtqtnspgsassvasqsiiaytmslgaensvaysnnsiaiptnfti
svtteilpvsmtktsvdctmyicgdstecsnlllqygsfctqlnraltgiaveqdkntqe
vfaqvkqiyktppikdfggfnfsqilpdpskpskrsfiedllfnkvtladagfikqygdc
lgdiaardlicaqkfngltvlpplltdemiaqytsallagtitsgwtfgagaalqipfam
qmayrfngigvtqnvlyenqklianqfnsaigkiqdslsstasalgklqdvvnqnaqaln
tlvkqlssnfgaissvlndilsrldppeaevqidrlitgrlqslqtyvtqqliraaeira
sanlaatkmsecvlgqskrvdfcgkgyhlmsfpqsaphgvvflhvtyvpaqeknfttapa
ichdgkahfpregvfvsngthwfvtqrnfyepqiittdntfvsgncdvvigivnntvydp
lqpeldsfkeeldkyfknhtspdvdlgdisginasvvniqkeidrlnevaknlneslidl
qelgkyeqgsgyipeaprdgqayvrkdgewvllstflgrslevlfqgpghhhhhhhhsaw
shpqfekgggsggggsggsawshpqfek

    Sequence, based on observed residues (ATOM records):
    >7l56C (C:)
aytnsftrgvyypdkvfrssvlhstqdlflpffsnvtwfhaihvsnpvlpfndgvyfast
eksniirgwifgttlqsllivnnatnvvikvcefqfcndpflgrvyssannctfeyvsqp
knlrefvfknidgyfkiyskhtpidlpqgfsaleplvdlpiitrfqtllaaayyvgylqp
rtfllkynengtitdavdcaldplsetkctlksftvekgiyqtsnfrvqptesivrfpni
tnlcpfgevfnatrfasvyawnrkrisncvadysvlynsasfstfkcygvsptklndlcf
tnvyadsfvirgdevrqiapgqtgkiadynyklpddftgcviawnsnnldskvggnynyl
yrlfrksnlkpferdisteiyqagstpcngvegfncyfplqsygfqptngvgyqpyrvvv
lsfellhapatvcgpkkstnlvknkcvnfnfngltgtgvltesnkkflpfqqfgrdiadt
tdavrdpqtleilditpcsfggvsvitpgtntsnqvavlyqdvnctevnvfqtragclig
aehvnnsyecdipigagicasyqtqsiiaytmslgaensvaysnnsiaiptnftisvtte
ilpvsmtktsvdctmyicgdstecsnlllqygsfctqlnraltgiaveqdkntqevfaqv
kqiyktppikdfggfnfsqilpdpskpskrsfiedllfnkvtlkfngltvlpplltdemi
aqytsallagtitsgwtfgagaalqipfamqmayrfngigvtqnvlyenqklianqfnsa
igkiqdslsstasalgklqdvvnqnaqalntlvkqlssnfgaissvlndilsrldppeae
vqidrlitgrlqslqtyvtqqliraaeirasanlaatkmsecvlgqskrvdfcgkgyhlm
sfpqsaphgvvflhvtyvpaqeknfttapaichdgkahfpregvfvsngthwfvtqrnfy
epqiittdntfvsgncdvvigivnntvydplqpe

  • Chain 'F':
    Sequence; same for both SEQRES and ATOM records:
    >7l56F (F:)
qvqlvqsgaevkkpgasvkvsckasgytftgyymhwvrqapgqglewmgwinpnsggtny
aqkfqgrvtmtrdtsittaymelrrlrsddtavyycarglgvgcsggncyldyyymdvwg
kgttvtvss

  • Chain 'G':
    Sequence; same for both SEQRES and ATOM records:
    >7l56G (G:)
qsaltqpasvsgspgqsitisctgtssdvggynyvswyqqhpgkapklmiydvskrpsgv
snrfsgsksgntasltisglqaedegdyycssytssstwvfgggtkltvl

  • Chain 'H':
    Sequence; same for both SEQRES and ATOM records:
    >7l56H (H:)
qvqlvqsgaevkkpgasvkvsckasgytftgyymhwvrqapgqglewmgwinpnsggtny
aqkfqgrvtmtrdtsittaymelrrlrsddtavyycarglgvgcsggncyldyyymdvwg
kgttvtvss

  • Chain 'J':
    Sequence; same for both SEQRES and ATOM records:
    >7l56J (J:)
qvqlvqsgaevkkpgasvkvsckasgytftgyymhwvrqapgqglewmgwinpnsggtny
aqkfqgrvtmtrdtsittaymelrrlrsddtavyycarglgvgcsggncyldyyymdvwg
kgttvtvss

  • Chain 'K':
    Sequence; same for both SEQRES and ATOM records:
    >7l56K (K:)
qsaltqpasvsgspgqsitisctgtssdvggynyvswyqqhpgkapklmiydvskrpsgv
snrfsgsksgntasltisglqaedegdyycssytssstwvfgggtkltvl

  • Chain 'L':
    Sequence; same for both SEQRES and ATOM records:
    >7l56L (L:)
qsaltqpasvsgspgqsitisctgtssdvggynyvswyqqhpgkapklmiydvskrpsgv
snrfsgsksgntasltisglqaedegdyycssytssstwvfgggtkltvl