1xfp
Crystal structure of the CDR2 germline reversion mutant of cAb-Lys3 in complex with hen egg white lysozyme
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OverviewOverview
Affinity maturation of classic antibodies supposedly proceeds through the, pre-organization of the reactive germ line conformational isomer. It is, less evident to foresee how this can be accomplished by camelid, heavy-chain antibodies lacking light chains. Although these antibodies are, subjected to somatic hypermutation, their antigen-binding fragment, consists of a single domain with restricted flexibility in favor of, binding energy. An antigen-binding domain derived from a dromedary, heavy-chain antibody, cAb-Lys3, accumulated five amino acid substitutions, in CDR1 and CDR2 upon maturation against lysozyme. Three of these residues, have hydrophobic side chains, replacing serines, and participate in the, hydrophobic core of the CDR1 in the mature antibody, suggesting that, conformational rearrangements might occur in this loop during maturation., However, transition state analysis of the binding kinetics of mature, cAb-Lys3 and germ line variants show that the maturation of this antibody, relies on events late in the reaction pathway. This is reflected by a, limited perturbation of k(a) and a significantly decreased k(d) upon, maturation. In addition, binding reactions and the maturation event are, predominantly enthalpically driven. Therefore, maturation proceeds through, the increase of favorable binding interactions, or by the reduction of the, enthalpic penalty for desolvation, as opposed to large entropic penalties, associated with conformational changes and structural plasticity., Furthermore, the crystal structure of the mutant with a restored germ line, CDR2 sequence illustrates that the matured hydrophobic core of CDR1 in, cAb-Lys3 might be compensated in the germ line precursor by burying, solvent molecules engaged in a stable hydrogen-bonding network with CDR1, and CDR2.
About this StructureAbout this Structure
1XFP is a Single protein structure of sequence from Camelus dromedarius and Gallus gallus with FMT as ligand. Active as Lysozyme, with EC number 3.2.1.17 Full crystallographic information is available from OCA.
ReferenceReference
Chemical basis for the affinity maturation of a camel single domain antibody., De Genst E, Handelberg F, Van Meirhaeghe A, Vynck S, Loris R, Wyns L, Muyldermans S, J Biol Chem. 2004 Dec 17;279(51):53593-601. Epub 2004 Sep 21. PMID:15383540
Page seeded by OCA on Sun Nov 18 09:44:35 2007