PDB entry 6wxl

View 6wxl on RCSB PDB site
Description: Cryo-EM structure of the VRC315 clinical trial, vaccine-elicited, human antibody 1D12 in complex with an H7 SH13 HA trimer
Class: immune system
Keywords: VRC, IMMUNE SYSTEM, VRC315, Group 2, Fab
Deposited on 2020-05-11, released 2021-06-09
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: EM
Resolution: 2.76 Å
R-factor: N/A
AEROSPACI score: 0.21 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: Hemagglutinin HA1 chain
    Species: Influenza A virus (A/Shanghai/JS01/2013(H7N9)) [TaxId:1395980]
    Gene: HA
    Database cross-references and differences (RAF-indexed):
    • Uniprot A0A067Y6L0 (0-End)
      • conflict (127)
      • conflict (204)
      • conflict (273)
    Domains in SCOPe 2.08: d6wxla_
  • Chain 'B':
    Compound: Hemagglutinin HA2 chain
    Species: Influenza A virus (A/Shanghai/JS01/2013(H7N9)) [TaxId:1395980]
    Gene: HA
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6wxlb_
  • Chain 'C':
    Compound: Hemagglutinin HA1 chain
    Species: Influenza A virus (A/Shanghai/JS01/2013(H7N9)) [TaxId:1395980]
    Gene: HA
    Database cross-references and differences (RAF-indexed):
    • Uniprot A0A067Y6L0 (0-End)
      • conflict (127)
      • conflict (204)
      • conflict (273)
    Domains in SCOPe 2.08: d6wxlc_
  • Chain 'D':
    Compound: Hemagglutinin HA2 chain
    Species: Influenza A virus (A/Shanghai/JS01/2013(H7N9)) [TaxId:1395980]
    Gene: HA
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6wxld_
  • Chain 'E':
    Compound: 1D12 Light chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6WXL (0-End)
    Domains in SCOPe 2.08: d6wxle_
  • Chain 'F':
    Compound: 1D21 Heavy chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6WXL (0-End)
  • Chain 'G':
    Compound: Hemagglutinin HA1 chain
    Species: Influenza A virus (A/Shanghai/JS01/2013(H7N9)) [TaxId:1395980]
    Gene: HA
    Database cross-references and differences (RAF-indexed):
    • Uniprot A0A067Y6L0 (0-End)
      • conflict (127)
      • conflict (204)
      • conflict (273)
    Domains in SCOPe 2.08: d6wxlg_
  • Chain 'H':
    Compound: 1D21 Heavy chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6WXL (0-End)
  • Chain 'I':
    Compound: Hemagglutinin HA2 chain
    Species: Influenza A virus (A/Shanghai/JS01/2013(H7N9)) [TaxId:1395980]
    Gene: HA
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.08: d6wxli_
  • Chain 'J':
    Compound: 1D12 Light chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6WXL (0-End)
    Domains in SCOPe 2.08: d6wxlj_
  • Chain 'K':
    Compound: 1D21 Heavy chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6WXL (0-End)
  • Chain 'L':
    Compound: 1D12 Light chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 6WXL (0-End)
    Domains in SCOPe 2.08: d6wxll_
  • Heterogens: NAG

PDB Chain Sequences:

  • Chain 'A':
    Sequence, based on SEQRES records: (download) 
    >6wxlA (A:)
dkiclghhavsngtkvntltergvevvnatetvertnipricskgkrtvdlgqcgllgti
tgppqcdqflefsadliierregsdvcypgkfvneealrqilresggidkeamgftysgi
rtngatsscrrsgssfyaemkwllsntdnaafpqmtksykntrknpalivwgihhsgsta
eqtklygsgnklvtvgssnyqqsfvpspgartqvngqsgridfhwlmlnpndtvtfsfng
afiapdrasflrgksmgiqsgvqvdadcegdcyysggtiisnlpfqnidsravgkcpryv
kqrslllatgmknvpeipkgr

    Sequence, based on observed residues (ATOM records): (download) 
    >6wxlA (A:)
dkiclghhavsngtkvntltergvevvnatetvertnipricskgkrtvdlgqcgllgti
tgppqcdqflefsadliierregsdvcypgkfvneealrqilresggidkeamgftysgi
rtngatsscrrsgssfyaemkwllsntdnaafpqmtksykntrknpalivwgihhsgsta
eqtklygsgnklvtvgssnyqqsfvpspgartqvngqsgridfhwlmlnpndtvtfsfng
afiapdrasflrgksmgiqsgvqvdadcegdcyysggtiisnlpfqnidsravgkcpryv
kqrslllatgmknvpe

  • Chain 'B':
    Sequence, based on SEQRES records: (download) 
    >6wxlB (B:)
glfgaiagfiengweglidgwygfrhqnaqgegtaadykstqsaidqitgklnrliektn
qqfelidneftevekqignvinwtrdsitevwsynaellvamenqhtidladsemdklye
rvkrqlrenaeedgtgcfeifhkcdddcmasirnntydhskyreeamqnriqidpvklss
gykdvilwfsfgascfillaiamglvficvkngnmrctici

    Sequence, based on observed residues (ATOM records): (download) 
    >6wxlB (B:)
gaiagfiengweglidgwygfrhqnaqgegtaadykstqsaidqitgklnrliektnqqf
elidneftevekqignvinwtrdsitevwsynaellvamenqhtidladsemdklyervk
rqlrenaeedgtgcfeifhkcdddcmasirnntydhskyreeamqnriqi

  • Chain 'C':
    Sequence, based on SEQRES records: (download) 
    >6wxlC (C:)
dkiclghhavsngtkvntltergvevvnatetvertnipricskgkrtvdlgqcgllgti
tgppqcdqflefsadliierregsdvcypgkfvneealrqilresggidkeamgftysgi
rtngatsscrrsgssfyaemkwllsntdnaafpqmtksykntrknpalivwgihhsgsta
eqtklygsgnklvtvgssnyqqsfvpspgartqvngqsgridfhwlmlnpndtvtfsfng
afiapdrasflrgksmgiqsgvqvdadcegdcyysggtiisnlpfqnidsravgkcpryv
kqrslllatgmknvpeipkgr

    Sequence, based on observed residues (ATOM records): (download) 
    >6wxlC (C:)
dkiclghhavsngtkvntltergvevvnatetvertnipricskgkrtvdlgqcgllgti
tgppqcdqflefsadliierregsdvcypgkfvneealrqilresggidkeamgftysgi
rtngatsscrrsgssfyaemkwllsntdnaafpqmtksykntrknpalivwgihhsgsta
eqtklygsgnklvtvgssnyqqsfvpspgartqvngqsgridfhwlmlnpndtvtfsfng
afiapdrasflrgksmgiqsgvqvdadcegdcyysggtiisnlpfqnidsravgkcpryv
kqrslllatgmknvpe

  • Chain 'D':
    Sequence, based on SEQRES records: (download) 
    >6wxlD (D:)
glfgaiagfiengweglidgwygfrhqnaqgegtaadykstqsaidqitgklnrliektn
qqfelidneftevekqignvinwtrdsitevwsynaellvamenqhtidladsemdklye
rvkrqlrenaeedgtgcfeifhkcdddcmasirnntydhskyreeamqnriqidpvklss
gykdvilwfsfgascfillaiamglvficvkngnmrctici

    Sequence, based on observed residues (ATOM records): (download) 
    >6wxlD (D:)
gaiagfiengweglidgwygfrhqnaqgegtaadykstqsaidqitgklnrliektnqqf
elidneftevekqignvinwtrdsitevwsynaellvamenqhtidladsemdklyervk
rqlrenaeedgtgcfeifhkcdddcmasirnntydhskyreeamqnriqi

  • Chain 'E':
    Sequence, based on SEQRES records: (download) 
    >6wxlE (E:)
divmtqsplslsvtpgepasiscrsshsllhlngynyldwylqkpgqspqlliylgsnra
sgvpdrfsgsgsgtdftlkisrveaedvgiyycmqalrtppgltfgggtkvdikrtvaap
svfifppsedqvksgtvsvvcllnnfypreasvkwkvdgalktgnsqesvteqdskdnty
slsstltlssteyqshkvyacevthqglsspvtksfnrgec

    Sequence, based on observed residues (ATOM records): (download) 
    >6wxlE (E:)
divmtqsplslsvtpgepasiscrsshsllhlngynyldwylqkpgqspqlliylgsnra
sgvpdrfsgsgsgtdftlkisrveaedvgiyycmqalrtppgltfgggtkvdik

  • Chain 'F':
    No sequence available.

  • Chain 'G':
    Sequence, based on SEQRES records: (download) 
    >6wxlG (G:)
dkiclghhavsngtkvntltergvevvnatetvertnipricskgkrtvdlgqcgllgti
tgppqcdqflefsadliierregsdvcypgkfvneealrqilresggidkeamgftysgi
rtngatsscrrsgssfyaemkwllsntdnaafpqmtksykntrknpalivwgihhsgsta
eqtklygsgnklvtvgssnyqqsfvpspgartqvngqsgridfhwlmlnpndtvtfsfng
afiapdrasflrgksmgiqsgvqvdadcegdcyysggtiisnlpfqnidsravgkcpryv
kqrslllatgmknvpeipkgr

    Sequence, based on observed residues (ATOM records): (download) 
    >6wxlG (G:)
dkiclghhavsngtkvntltergvevvnatetvertnipricskgkrtvdlgqcgllgti
tgppqcdqflefsadliierregsdvcypgkfvneealrqilresggidkeamgftysgi
rtngatsscrrsgssfyaemkwllsntdnaafpqmtksykntrknpalivwgihhsgsta
eqtklygsgnklvtvgssnyqqsfvpspgartqvngqsgridfhwlmlnpndtvtfsfng
afiapdrasflrgksmgiqsgvqvdadcegdcyysggtiisnlpfqnidsravgkcpryv
kqrslllatgmknvpe

  • Chain 'H':
    No sequence available.

  • Chain 'I':
    Sequence, based on SEQRES records: (download) 
    >6wxlI (I:)
glfgaiagfiengweglidgwygfrhqnaqgegtaadykstqsaidqitgklnrliektn
qqfelidneftevekqignvinwtrdsitevwsynaellvamenqhtidladsemdklye
rvkrqlrenaeedgtgcfeifhkcdddcmasirnntydhskyreeamqnriqidpvklss
gykdvilwfsfgascfillaiamglvficvkngnmrctici

    Sequence, based on observed residues (ATOM records): (download) 
    >6wxlI (I:)
gaiagfiengweglidgwygfrhqnaqgegtaadykstqsaidqitgklnrliektnqqf
elidneftevekqignvinwtrdsitevwsynaellvamenqhtidladsemdklyervk
rqlrenaeedgtgcfeifhkcdddcmasirnntydhskyreeamqnriqi

  • Chain 'J':
    Sequence, based on SEQRES records: (download) 
    >6wxlJ (J:)
divmtqsplslsvtpgepasiscrsshsllhlngynyldwylqkpgqspqlliylgsnra
sgvpdrfsgsgsgtdftlkisrveaedvgiyycmqalrtppgltfgggtkvdikrtvaap
svfifppsedqvksgtvsvvcllnnfypreasvkwkvdgalktgnsqesvteqdskdnty
slsstltlssteyqshkvyacevthqglsspvtksfnrgec

    Sequence, based on observed residues (ATOM records): (download) 
    >6wxlJ (J:)
divmtqsplslsvtpgepasiscrsshsllhlngynyldwylqkpgqspqlliylgsnra
sgvpdrfsgsgsgtdftlkisrveaedvgiyycmqalrtppgltfgggtkvdik

  • Chain 'K':
    No sequence available.

  • Chain 'L':
    Sequence, based on SEQRES records: (download) 
    >6wxlL (L:)
divmtqsplslsvtpgepasiscrsshsllhlngynyldwylqkpgqspqlliylgsnra
sgvpdrfsgsgsgtdftlkisrveaedvgiyycmqalrtppgltfgggtkvdikrtvaap
svfifppsedqvksgtvsvvcllnnfypreasvkwkvdgalktgnsqesvteqdskdnty
slsstltlssteyqshkvyacevthqglsspvtksfnrgec

    Sequence, based on observed residues (ATOM records): (download) 
    >6wxlL (L:)
divmtqsplslsvtpgepasiscrsshsllhlngynyldwylqkpgqspqlliylgsnra
sgvpdrfsgsgsgtdftlkisrveaedvgiyycmqalrtppgltfgggtkvdik