1YUH

FAB FRAGMENT

Summary for 1YUH

• Entry DOI: 10.2210/pdb1yuh/pdb
• Descriptor: 88C6/12 FAB (LIGHT CHAIN), 88C6/12 FAB (HEAVY CHAIN), 4-HYDROXY-3-NITROPHENYLACETYL-EPSILON-AMINOCAPROIC ACID, ... (4 entities in total)
• Functional Keywords: anti-nitrophenol, lambda light chain, immunoglobulin, immune system
• Biological source: Mus musculus (mouse); More
• Total number of polymer chains: 4
• Total formula weight: 92833.88

Authors

Yuhasz, S.C.,Amzel, L.M.,Parry, C.,Strand, M. (deposition date: 1996-01-30, release date: 1996-07-11, Last modification date: 2024-10-23)

Primary citation

Yuhasz, S.C.,Parry, C.,Strand, M.,Amzel, L.M.
Structural analysis of affinity maturation: the three-dimensional structures of complexes of an anti-nitrophenol antibody.
Mol.Immunol., 32:1143-1155, 1995

PubMed Abstract: Affinity maturation of the immune response to nitrophenol-containing antigens has been extensively investigated. Significant strides made during the past several years with the advent of PCR technology have provided a wealth of biochemical knowledge. Structural investigations of the phenomena have however been limited. We have determined the three-dimensional structure of the Fab fragment of 88C6/12, an anti-4-hydroxy-3-nitrophenyl acetic acid antibody complexed with the immunizing hapten and with a heteroclitic iodinated hapten. The crystallographic structure of the complexes reveals that the binding is stabilized by a number of hydrogen bonds and extensive van der Waals interactions between the hapten and the antibody. In addition, the Fab binding pocket contains a region of positive electrostatic potential well suited for interaction with the predominant resonance form of the nitrophenyl ring system. The observed heteroclicity towards the iodinated hapten is not a direct result of iodine-protein interactions, but results from the enhanced stability in the iodinated ring of the resonance form that binds the antibody. In addition this investigation provides a rationale for the strong preference for the substitution in the heavy chain from the germ-line gene encoded Trp 33 to Leu 33 in the mature anti-nitrophenol response.

PubMed: 8544863
DOI: 10.1016/0161-5890(95)00063-1

Experimental method

X-RAY DIFFRACTION (3 Å)