PDB entry 3dno

View 3dno on RCSB PDB site
Description: molecular structure for the hiv-1 gp120 trimer in the cd4-bound state
Deposited on 2008-07-02, released 2008-08-19
The last revision was dated 2018-07-18, with a file datestamp of 2018-07-13.
Experiment type: EM
Resolution: 20 Å
R-factor: N/A
AEROSPACI score: -0.17 (click here for full SPACI score report)

Chains and heterogens:

• Chain 'A':
  Compound: HIV-1 envelope glycoprotein gp120
  Species: HIV-1 M:B_HXB2R [TaxId:11706]
  Gene: ENV
  Database cross-references and differences (RAF-indexed):
  • Uniprot P04578 (0-34)
• Chain 'B':
  Compound: HIV-1 envelope glycoprotein gp120
  Species: HIV-1 M:B_HXB2R [TaxId:11706]
  Gene: ENV
  Database cross-references and differences (RAF-indexed):
  • Uniprot P04578 (0-99)
    • linker (100-102)
  • Uniprot P04578 (103-169)
    • linker (100-102)
• Chain 'C':
  Compound: HIV-1 envelope glycoprotein gp120
  Species: HIV-1 M:B_HXB2R [TaxId:11706]
  Gene: ENV
  Database cross-references and differences (RAF-indexed):
  • Uniprot P04578 (0-82)
• Chain 'D':
  Compound: HIV-1 envelope glycoprotein gp120
  Species: HIV-1 M:B_HXB2R [TaxId:11706]
  Gene: ENV
  Database cross-references and differences (RAF-indexed):
  • Uniprot P04578 (0-34)
• Chain 'E':
  Compound: HIV-1 envelope glycoprotein gp120
  Species: HIV-1 M:B_HXB2R [TaxId:11706]
  Gene: ENV
  Database cross-references and differences (RAF-indexed):
  • Uniprot P04578 (0-99)
    • linker (100-102)
  • Uniprot P04578 (103-169)
    • linker (100-102)
• Chain 'F':
  Compound: HIV-1 envelope glycoprotein gp120
  Species: HIV-1 M:B_HXB2R [TaxId:11706]
  Gene: ENV
  Database cross-references and differences (RAF-indexed):
  • Uniprot P04578 (0-82)
• Chain 'G':
  Compound: HIV-1 envelope glycoprotein gp120
  Species: HIV-1 M:B_HXB2R [TaxId:11706]
  Gene: ENV
  Database cross-references and differences (RAF-indexed):
  • Uniprot P04578 (0-34)
• Chain 'H':
  Compound: HIV-1 envelope glycoprotein gp120
  Species: HIV-1 M:B_HXB2R [TaxId:11706]
  Gene: ENV
  Database cross-references and differences (RAF-indexed):
  • Uniprot P04578 (0-99)
    • linker (100-102)
  • Uniprot P04578 (103-169)
    • linker (100-102)
• Chain 'I':
  Compound: HIV-1 envelope glycoprotein gp120
  Species: HIV-1 M:B_HXB2R [TaxId:11706]
  Gene: ENV
  Database cross-references and differences (RAF-indexed):
  • Uniprot P04578 (0-82)

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; same for both SEQRES and ATOM records:
  

  >3dnoA (A:)
  tenfnmwkndmveqmhediislwdqslkpcvkltp
  

  
  
• Chain 'B':
  Sequence; same for both SEQRES and ATOM records:
  

  >3dnoB (B:)
  tsvitqacpkvsfepipihycapagfailkcnnktfngtgpctnvstvqcthgirpvvst
  qlllngslaeeevvirsvnftdnaktiivqlntsveinctgaghcnisrakwnntlkqia
  sklreqfgnnktiifkqssggdpeivthsfncggeffycnstqlfnstwf
  

  
  
• Chain 'C':
  Sequence; same for both SEQRES and ATOM records:
  

  >3dnoC (C:)
  gsdtitlpcrikqiinmwqkvgkamyappisgqircssnitgllltrdggnsnneseifr
  pgggdmrdnwrselykykvvkie
  

  
  
• Chain 'D':
  Sequence; same for both SEQRES and ATOM records:
  

  >3dnoD (D:)
  tenfnmwkndmveqmhediislwdqslkpcvkltp
  

  
  
• Chain 'E':
  Sequence; same for both SEQRES and ATOM records:
  

  >3dnoE (E:)
  tsvitqacpkvsfepipihycapagfailkcnnktfngtgpctnvstvqcthgirpvvst
  qlllngslaeeevvirsvnftdnaktiivqlntsveinctgaghcnisrakwnntlkqia
  sklreqfgnnktiifkqssggdpeivthsfncggeffycnstqlfnstwf
  

  
  
• Chain 'F':
  Sequence; same for both SEQRES and ATOM records:
  

  >3dnoF (F:)
  gsdtitlpcrikqiinmwqkvgkamyappisgqircssnitgllltrdggnsnneseifr
  pgggdmrdnwrselykykvvkie
  

  
  
• Chain 'G':
  Sequence; same for both SEQRES and ATOM records:
  

  >3dnoG (G:)
  tenfnmwkndmveqmhediislwdqslkpcvkltp
  

  
  
• Chain 'H':
  Sequence; same for both SEQRES and ATOM records:
  

  >3dnoH (H:)
  tsvitqacpkvsfepipihycapagfailkcnnktfngtgpctnvstvqcthgirpvvst
  qlllngslaeeevvirsvnftdnaktiivqlntsveinctgaghcnisrakwnntlkqia
  sklreqfgnnktiifkqssggdpeivthsfncggeffycnstqlfnstwf
  

  
  
• Chain 'I':
  Sequence; same for both SEQRES and ATOM records:
  

  >3dnoI (I:)
  gsdtitlpcrikqiinmwqkvgkamyappisgqircssnitgllltrdggnsnneseifr
  pgggdmrdnwrselykykvvkie