3Q1S image
Deposition Date 2010-12-17
Release Date 2011-11-02
Last Version Date 2024-11-06
Entry Detail
PDB ID:
3Q1S
Title:
HIV-1 neutralizing antibody Z13e1 in complex with epitope display protein
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Method Details:
Experimental Method:
Resolution:
2.15 Å
R-Value Free:
0.26
R-Value Work:
0.20
R-Value Observed:
0.20
Space Group:
P 21 21 21
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Z13e1 Fab heavy chain
Chain IDs:B (auth: H)
Chain Length:230
Number of Molecules:1
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Interleukin-22
Gene (Uniprot):IL22
Mutagens:S64W, L65N, A66W, N68D, N69I
Chain IDs:C (auth: I)
Chain Length:151
Number of Molecules:1
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Z13e1 Fab light chain
Chain IDs:A (auth: L)
Chain Length:212
Number of Molecules:1
Biological Source:Homo sapiens
Primary Citation
Structure-Based Design of a Protein Immunogen that Displays an HIV-1 gp41 Neutralizing Epitope.
J.Mol.Biol. 414 460 476 (2011)
PMID: 22033480 DOI: 10.1016/j.jmb.2011.10.014

Abstact

Antibody Z13e1 is a relatively broadly neutralizing anti-human immunodeficiency virus type 1 antibody that recognizes the membrane-proximal external region (MPER) of the human immunodeficiency virus type 1 envelope glycoprotein gp41. Based on the crystal structure of an MPER epitope peptide in complex with Z13e1 Fab, we identified an unrelated protein, interleukin (IL)-22, with a surface-exposed region that is structurally homologous in its backbone to the gp41 Z13e1 epitope. By grafting the gp41 Z13e1 epitope sequence onto the structurally homologous region in IL-22, we engineered a novel protein (Z13-IL22-2) that contains the MPER epitope sequence for use as a potential immunogen and as a reagent for the detection of Z13e1-like antibodies. The Z13-IL22-2 protein binds Fab Z13e1 with a K(d) of 73 nM. The crystal structure of Z13-IL22-2 in complex with Fab Z13e1 shows that the epitope region is faithfully replicated in the Fab-bound scaffold protein; however, isothermal calorimetry studies indicate that Fab binding to Z13-IL22-2 is not a lock-and-key event, leaving open the question of whether conformational changes upon binding occur in the Fab, in Z13-IL-22, or in both.

Legend

Protein

Chemical

Disease

Primary Citation of related structures