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PDBsum entry 3lmj
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Immune system PDB id
3lmj

 

 

 

 

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Contents
Protein chains
225 a.a.
215 a.a. *
Ligands
MPD ×2
Waters ×181
* Residue conservation analysis
PDB id:
3lmj
Name: Immune system
Title: Structure of human anti HIV 21c fab
Structure: Heavy chain of anti HIV fab from human 21c antibody. Chain: h. Engineered: yes. Light chain of anti HIV fab from human 21c antibody. Chain: l. Engineered: yes
Source: Homo sapiens. Organism_taxid: 9606. Expression_system_cell_line: hek293. Expression_system_cell_line: hek293
Resolution:
2.20Å     R-factor:   0.194     R-free:   0.219
Authors: R.Diskin,P.M.Marcovecchio,P.J.Bjorkman
Key ref: R.Diskin et al. (2010). Structure of a clade C HIV-1 gp120 bound to CD4 and CD4-induced antibody reveals anti-CD4 polyreactivity. Nat Struct Biol, 17, 608-613. PubMed id: 20357769
Date:
30-Jan-10     Release date:   07-Apr-10    
PROCHECK
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 Headers
 References

Protein chain
No UniProt id for this chain
Struc: 225 a.a.
Protein chain
No UniProt id for this chain
Struc: 215 a.a.
Key:    Secondary structure  CATH domain

 

 
Nat Struct Biol 17:608-613 (2010)
PubMed id: 20357769  
 
 
Structure of a clade C HIV-1 gp120 bound to CD4 and CD4-induced antibody reveals anti-CD4 polyreactivity.
R.Diskin, P.M.Marcovecchio, P.J.Bjorkman.
 
  ABSTRACT  
 
Strategies to combat HIV-1 require structural knowledge of envelope proteins from viruses in HIV-1 clade C, the most rapidly spreading subtype in the world. We present a crystal structure containing a clade C gp120 envelope. The structure, a complex between gp120, the host receptor CD4 and the CD4-induced antibody 21c, reveals that the 21c epitope involves contacts with gp120, a nonself antigen, and with CD4, an autoantigen. Binding studies using wild-type and mutant CD4 show that 21c Fab binds CD4 in the absence of gp120, and that binding of 21c to clade C and HIV-2 gp120s requires the crystallographically observed 21c-CD4 interaction. Additional binding data suggest a role for the gp120 V1V2 loop in creating a high-affinity, but slow-forming, epitope for 21c after CD4 binds. These results contribute to a molecular understanding of CD4-induced antibodies and provide the first visualization to our knowledge of a potentially autoreactive antibody Fab complexed with both self and nonself antigens.
 

Literature references that cite this PDB file's key reference

  PubMed id Reference
21490392 J.Benckert, N.Schmolka, C.Kreschel, M.J.Zoller, A.Sturm, B.Wiedenmann, and H.Wardemann (2011).
The majority of intestinal IgA+ and IgG+ plasmablasts in the human gut are antigen-specific.
  J Clin Invest, 121, 1946-1955.  
  21465559 L.T.Da, J.M.Quan, and Y.D.Wu (2011).
Understanding the binding mode and function of BMS-488043 against HIV-1 viral entry.
  Proteins, 79, 1810-1819.  
20442740 B.F.Haynes, N.I.Nicely, and S.M.Alam (2010).
HIV-1 autoreactive antibodies: are they good or bad for HIV-1 prevention?
  Nat Struct Mol Biol, 17, 543-545.  
20929726 B.Wu, E.Y.Chien, C.D.Mol, G.Fenalti, W.Liu, V.Katritch, R.Abagyan, A.Brooun, P.Wells, F.C.Bi, D.J.Hamel, P.Kuhn, T.M.Handel, V.Cherezov, and R.C.Stevens (2010).
Structures of the CXCR4 chemokine GPCR with small-molecule and cyclic peptide antagonists.
  Science, 330, 1066-1071.
PDB codes: 3odu 3oe0 3oe6 3oe8 3oe9
  21050445 D.Archary, M.L.Gordon, T.N.Green, H.M.Coovadia, P.J.Goulder, and T.Ndung'u (2010).
HIV-1 subtype C envelope characteristics associated with divergent rates of chronic disease progression.
  Retrovirology, 7, 92.  
The most recent references are shown first. Citation data come partly from CiteXplore and partly from an automated harvesting procedure. Note that this is likely to be only a partial list as not all journals are covered by either method. However, we are continually building up the citation data so more and more references will be included with time. Where a reference describes a PDB structure, the PDB codes are shown on the right.

 

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