1C2N

CYTOCHROME C2, NMR, 20 STRUCTURES

1C2N の概要

• エントリーDOI: 10.2210/pdb1c2n/pdb
• 分子名称: CYTOCHROME C2, HEME C (2 entities in total)
• 機能のキーワード: electron transport
• 由来する生物種: Rhodobacter capsulatus
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 14917.98

構造登録者

Cordier, F.,Caffrey, M.S.,Brutscher, B.,Cusanovich, M.A.,Marion, D.,Blackledge, M. (登録日: 1998-04-27, 公開日: 1999-03-23, 最終更新日: 2024-10-30)

主引用文献

Cordier, F.,Caffrey, M.,Brutscher, B.,Cusanovich, M.A.,Marion, D.,Blackledge, M.
Solution structure, rotational diffusion anisotropy and local backbone dynamics of Rhodobacter capsulatus cytochrome c2.
J.Mol.Biol., 281:341-361, 1998

PubMed Abstract: The solution structure, backbone dynamics and rotational diffusion of the Rhodobacter capsulatus cytochrome c2 have been determined using heteronuclear NMR spectroscopy. In all, 1204 NOE-derived distances were used in the structure calculation to give a final ensemble with 0.59(+/-0.08) A rms deviation for the backbone atoms (C, Calpha and N) with respect to the mean coordinates. There is no major difference between the solution structure and the previously solved X-ray crystal structure (1.07(+/-0.07) A rms difference for the backbone atoms), although certain significant local structural differences have been identified. This protein contains five helical regions and a histidine-heme binding domain, connected by a series of structured loops. The orientation of the helices provides an excellent sampling of angular space and thus allows a precise characterization of the anisotropic diffusion tensor. Analysis of the hydrodynamics of the protein has been performed by interpretation of the 15N relaxation data using isotropic, axially asymmetric and fully anisotropic diffusion tensors. The protein can be shown to exhibit significant anisotropic reorientation with a diffusion tensor with principal axes values of 1.405(+/-0.031)x10(7) s-1, 1.566(+/-0.051)x10(7) s-1 and 1.829(+/-0.054)x10(7) s-1. Hydrodynamic calculations performed on the solution structure predict values of 1.399x10(7) s-1, 1.500x10(7) s-1 and 1.863x10(7) s-1 when a solvent shell of 3.5 A is included in the calculation. The optimal orientation of the diffusion tensor has been incorporated into a hybrid Lipari-Szabo type local motion-anisotropic rotational diffusion model to characterize the local mobility in the molecule. The mobility parameters thus extracted show a quantitative improvement with respect to the model-free analysis assuming isotropic reorientation; helical regions exhibit similar dynamic properties and fewer residues require more complex models of internal motion. While the molecule is essentially rigid, a tripeptide loop region (residues 101 to 103) exhibits flexibility in the range of 20 to 30 ps, which appears to be correlated with the order in the NMR solution structure.

PubMed: 9698552
DOI: 10.1006/jmbi.1998.1950

実験手法

SOLUTION NMR