Refinement of the structure of recombinant rat intestinal fatty acid- binding apoprotein at 1.2-Å resolution

G. Scapin, Jeffrey Gordon, J. C. Sacchettini

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Abstract

The three-dimensional structure of the 131-residue rat intestinal fatty acid-binding protein, without bound ligand (apoI-FABP), has been refined with x-ray diffraction data to a nominal resolution of 1.19 Å. The final model has a conventional crystallographic R-factor of 16.9% for 34,290 unique reflections [a root mean square (r.m.s.) deviation for bond length of 0.012 Å and a r.m.s. deviation of 2.368° for bond angles]. Ninety-two residues are present as components of the protein's 10 anti-parallel β-strands while 14 residues are part of its two short α-helices. The β-strands and α- helices are organized into two nearly orthogonal β-sheets. Particular attention has been placed in defining solvent structure and the structures of discretely disordered groups in this protein. Two hundred thirty-seven solvent molecules have been identified; 24 are located within apoI-FABP. The refined model includes alternate conformers for 228 protein atoms (109 main- chain, 119 side-chain) and 63 solvent molecules. We have found several aromatic side-chains with multiple conformations located near, or in, the protein's ligand binding site. This observation, along with the fact that these side-chains have a temperature factor that is relatively higher than that of other aromatic residues, suggests that they may be involved in the process of noncovalent binding of fatty acid. The absence of a true hydrophobic core in I-FABP suggests that its structural integrity may be maintained primarily by a hydrogen bonding network involving protein and solvent atoms.

Original languageEnglish
Pages (from-to)4253-4269
Number of pages17
JournalJournal of Biological Chemistry
Volume267
Issue number6
StatePublished - 1992

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