PDB entry 3jwd

View 3jwd on RCSB PDB site
Description: Structure of HIV-1 gp120 with gp41-Interactive Region: Layered Architecture and Basis of Conformational Mobility
Class: viral protein
Keywords: hiv-1 viral spike, molecular motion, protein architecture, receptor-triggered entry, type 1 fusion protein, cell membrane, disulfide bond, glycoprotein, host-virus interaction, immune response, viral protein
Deposited on 2009-09-18, released 2009-12-29
The last revision prior to the SCOPe 2.07 freeze date was dated 2011-07-13, with a file datestamp of 2011-05-25.
Experiment type: XRAY
Resolution: 2.61 Å
R-factor: 0.201
AEROSPACI score: 0.31 (click here for full SPACI score report)

Chains and heterogens:

  • Chain 'A':
    Compound: hiv-1 gp120 envelope glycoprotein
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Database cross-references and differences (RAF-indexed):
    • PDB 3JWD (0-End)
  • Chain 'B':
    Compound: hiv-1 gp120 envelope glycoprotein
    Species: Human immunodeficiency virus 1 [TaxId:11676]
    Database cross-references and differences (RAF-indexed):
    • PDB 3JWD (0-End)
  • Chain 'C':
    Compound: T-cell surface glycoprotein cd4
    Species: Homo sapiens [TaxId:9606]
    Gene: CD4
    Database cross-references and differences (RAF-indexed):
    • Uniprot P01730 (1-183)
      • initiating methionine (0)
    Domains in SCOPe 2.07: d3jwdc1, d3jwdc2
  • Chain 'D':
    Compound: T-cell surface glycoprotein cd4
    Species: Homo sapiens [TaxId:9606]
    Gene: CD4
    Database cross-references and differences (RAF-indexed): Domains in SCOPe 2.07: d3jwdd1, d3jwdd2
  • Chain 'H':
    Compound: Fab 48d heavy chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 3JWD (0-219)
  • Chain 'L':
    Compound: Fab 48d light chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 3JWD (0-212)
    Domains in SCOPe 2.07: d3jwdl1, d3jwdl2
  • Chain 'O':
    Compound: Fab 48d light chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 3JWD (0-End)
    Domains in SCOPe 2.07: d3jwdo1, d3jwdo2
  • Chain 'P':
    Compound: Fab 48d heavy chain
    Species: Homo sapiens [TaxId:9606]
    Database cross-references and differences (RAF-indexed):
    • PDB 3JWD (0-End)
  • Heterogens: NAG, GOL, HOH

PDB Chain Sequences:

  • Chain 'A':
    No sequence available.

  • Chain 'B':
    No sequence available.

  • Chain 'C':
    Sequence; same for both SEQRES and ATOM records: (download)
    >3jwdC (C:)
    mkkvvlgkkgdtveltctasqkksiqfhwknsnqikilgnqgsfltkgpsklndradsrr
    slwdqgnfpliiknlkiedsdtyicevedqkeevqllvfgltansdthllqgqsltltle
    sppgsspsvqcrsprgkniqggktlsvsqlelqdsgtwtctvlqnqkkvefkidivvlaf
    qkas
    

  • Chain 'D':
    Sequence, based on SEQRES records: (download)
    >3jwdD (D:)
    mkkvvlgkkgdtveltctasqkksiqfhwknsnqikilgnqgsfltkgpsklndradsrr
    slwdqgnfpliiknlkiedsdtyicevedqkeevqllvfgltansdthllqgqsltltle
    sppgsspsvqcrsprgkniqggktlsvsqlelqdsgtwtctvlqnqkkvefkidivvlaf
    qkas
    

    Sequence, based on observed residues (ATOM records): (download)
    >3jwdD (D:)
    kkvvlgkkgdtveltctasqkksiqfhwknsnqikilgnqgsfltkgpsklndradsrrs
    lwdqgnfpliiknlkiedsdtyicevedqkeevqllvfgltansdthllqgqsltltles
    ppgsspsvqcrsprgkniqggktlsvsqlelqdsgtwtctvlqnqkkvefkidivvlafq
    kas
    

  • Chain 'H':
    No sequence available.

  • Chain 'L':
    Sequence; same for both SEQRES and ATOM records: (download)
    >3jwdL (L:)
    diqmtqspssvsasvgdrvtitcrasqdistwlawyqqkpgkapklliyaastlqsgvps
    rfsgsgsgtdfsltinslqpedfatyycqqansfftfgggtkveikrtvaapsvfifpps
    deqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsstltl
    skadyekhklyacevthqglsspvtksfnrgec
    

  • Chain 'O':
    Sequence, based on SEQRES records: (download)
    >3jwdO (O:)
    diqmtqspssvsasvgdrvtitcrasqdistwlawyqqkpgkapklliyaastlqsgvps
    rfsgsgsgtdfsltinslqpedfatyycqqansfftfgggtkveikrtvaapsvfifpps
    deqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsstltl
    skadyekhklyacevthqglsspvtksfnrgec
    

    Sequence, based on observed residues (ATOM records): (download)
    >3jwdO (O:)
    diqmtqspssvsasvgdrvtitcrasqdistwlawyqqkpgkapklliyaastlqsgvps
    rfsgsgsgtdfsltinslqpedfatyycqqansfftfgggtkveikrtvaapsvfifpps
    deqlksgtasvvcllnnfypreakvqwkvdnalqsgnsqesvteqdskdstyslsstltl
    skadyekhklyacevthqglsspvtksfnrge
    

  • Chain 'P':
    No sequence available.