1lop
From Proteopedia
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CYCLOPHILIN A COMPLEXED WITH SUCCINYL-ALA-PRO-ALA-P-NITROANILIDE
Overview
The three-dimensional structure of Escherichia coli cytosolic cyclophilin, A (CyPA) complexed with a tripeptide (succinyl-Ala-Pro-Ala-p-nitroanilide), was refined at 1.8 A resolution by the multiple isomorphous replacement, method to a crystallographic R-factor of 17.6%. As in human CyPA, the, peptide binding site in E. coli enzyme is in a cleft created on the, surface of the upper sheet of two orthogonal beta-sheets. In this cleft, the walls of the hydrophobic pocket are formed by the side-chains of five, non-polar residues, Phe48, Met49, Phe107, Leu108, and Try120, with Phe99, at the bottom. When the cis isomer of the tripeptide binds to the enzyme, a cis-proline ring is inserted into the hydrophobic pocket. Since the, binding pocket of CyPAs are largely hydrophobic, the cis isomer of a, peptide can be bound more firmly than the trans isomer. Distortion of the, trans isomer could lead to better binding, but at an energetic cost of the, distortion energy. At the periphery of the upper beta-sheet in E. coli, CyPA, conformations of loops L1, L3, and L4 and the segment connecting, alpha1 and beta3 with deletions or insertions against human CyPA differ, significantly from those in human CyPA. The refined model also shows that, steric hindrance to attachment of cyclosporin A (CsA) prevents E. coli, CyPA forming a complex with CsA. Thus, the extra amino acid residue of E., coli CyPA, polar Gln89, lies along the pathway to the hydrophobic pocket, of CyPA and seems to prevent the access hydrophobic part of CsA to the, cleft of CyPA.
About this Structure
1LOP is a Single protein structure of sequence from [1]. Active as Peptidylprolyl isomerase, with EC number 5.2.1.8 Full crystallographic information is available from OCA.
Reference
The substrate-binding site in Escherichia coli cyclophilin A preferably recognizes a cis-proline isomer or a highly distorted form of the trans isomer., Konno M, Ito M, Hayano T, Takahashi N, J Mol Biol. 1996 Mar 15;256(5):897-908. PMID:8601841
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