Structure of tyrosine-sulfated 412d antibody complexed with HIV-1 YU2 gp120 and CD4
2QAD
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Viral Protein/immune System
    Structure Weight: 216739.04
    Molecule: Envelope glycoprotein gp160
    Polymer: 1 Type: protein Length: 322
    Chains: A, E
    Fragment: CORE WITH V3
    Organism: Human immunodeficiency virus 1
    Gene Name: env
    UniProtKB: Search PDB | P35961   Protein Feature View
    Molecule: T-cell surface glycoprotein CD4
    Polymer: 2 Type: protein Length: 181
    Chains: B, F
    Fragment: D1D2, IG-LIKE V-TYPE AND IG-LIKE C2-TYPE 1 DOMAINS
    Organism: Homo sapiens
    Gene Name: Gene View for CD4
    UniProtKB: Search PDB | P01730   Protein Feature View
    Molecule: anti-HIV-1 antibody 412d light chain
    Polymer: 3 Type: protein Length: 214
    Chains: C, G
    Fragment: FAB, ANTIGEN-BINDING FRAGMENT
    Organism: Homo sapiens
    Molecule: anti-HIV-1 antibody 412d heavy chain
    Polymer: 4 Type: protein Length: 231
    Chains: D, H
    Fragment: FAB, ANTIGEN-BINDING FRAGMENT
    Organism: Homo sapiens
    Gene Name: VHCH1
    UniProtKB: Search PDB | A4F255   Protein Feature View
     
  •   Structure Validation Hide

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  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Human immunodeficiency virus 1   Taxonomy   Expression System: Homo sapiens  
    Polymer: 2
    Scientific Name: Homo sapiens   Taxonomy   Common Name: Human Expression System: Escherichia coli  
    Polymer: 3
    Scientific Name: Homo sapiens   Taxonomy   Common Name: Human Expression System: Human herpesvirus 4  
    Polymer: 4
    Scientific Name: Homo sapiens   Taxonomy   Common Name: Human Expression System: Human herpesvirus 4  
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    EDO
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    EDO C2 H6 O2
    1,2-ETHANEDIOL
    MLA
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    MLA C3 H4 O4
    MALONIC ACID
    NAG
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    NAG C8 H15 N O6
    N-ACETYL-D-GLUCOSAMINE
     
  •   Modified Residues Hide
    Identifier Formula Parent Type
    TYS
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    TYS C9 H11 N O6 S TYR lPeptideLinking
     
  •   External Domain Annotations Hide
     
  •   Structural Biology Knowledgebase Data Hide
     
 
Data in orange boxes are gathered from external resources (when available).
  Biological Assembly 1       
Biological assembly 1 assigned by authors
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  •   Deposition Summary Hide
    Authors:   Huang, C.-C.,  Tang, M.,  Robinson, J.,  Wyatt, R.,  Kwong, P.D.

    Deposition:   2007-06-14
    Release:   2007-09-25
    Last Modified (REVDAT):   2015-04-29
     
  •   Revision History    Hide
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    2015-04-29
    Non-polymer description
    2011-07-13
    Version format compliance
    2011-07-13
    Non-polymer description
     
  •   Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Exp. Data:
      Structure Factors
    Resolution[Å]:   3.30
    R-Value: 0.202 (work)
    R-Free: 0.269
    Space Group: P 1 21 1
    Unit Cell:
      Length [Å] Angles [°]
    a = 109.60 α = 90.00 
    b = 53.02 β = 104.64 
    c = 225.33 γ = 90.00