1NI7

NORTHEAST STRUCTURAL GENOMIC CONSORTIUM TARGET ER75

1NI7 の概要

• エントリーDOI: 10.2210/pdb1ni7/pdb
• 分子名称: Hypothetical protein ygdK (1 entity in total)
• 機能のキーワード: er75, rd-nmr, structural genomics, psi, protein structure initiative, northeast structural genomics consortium, nesg, unknown function
• 由来する生物種: Escherichia coli
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 17027.37

構造登録者

Liu, G.,Chiang, Y.,Acton, T.,Montelione, G.T.,Szyperski, T.,Northeast Structural Genomics Consortium (NESG) (登録日: 2002-12-21, 公開日: 2003-06-03, 最終更新日: 2024-05-22)

主引用文献

Liu, G.,Li, Z.,Chiang, Y.,Acton, T.,Montelione, G.T.,Murray, D.,Szyperski, T.
High-quality homology models derived from NMR and X-ray structures of E. coli proteins YgdK and Suf E suggest that all members of the YgdK/Suf E protein family are enhancers of cysteine desulfurases.
Protein Sci., 14:1597-1608, 2005

PubMed Abstract: The structural biology of proteins mediating iron-sulfur (Fe-S) cluster assembly is central for understanding several important biological processes. Here we present the NMR structure of the 16-kDa protein YgdK from Escherichia coli, which shares 35% sequence identity with the E. coli protein SufE. The SufE X-ray crystal structure was solved in parallel with the YdgK NMR structure in the Northeast Structural Genomics (NESG) consortium. Both proteins are (1) key components for Fe-S metabolism, (2) exhibit the same distinct fold, and (3) belong to a family of at least 70 prokaryotic and eukaryotic sequence homologs. Accurate homology models were calculated for the YgdK/SufE family based on YgdK NMR and SufE crystal structure. Both structural templates contributed equally, exemplifying synergy of NMR and X-ray crystallography. SufE acts as an enhancer of the cysteine desulfurase activity of SufS by SufE-SufS complex formation. A homology model of CsdA, a desulfurase encoded in the same operon as YgdK, was modeled using the X-ray structure of SufS as a template. Protein surface and electrostatic complementarities strongly suggest that YgdK and CsdA likewise form a functional two-component desulfurase complex. Moreover, structural features of YgdK and SufS, which can be linked to their interaction with desulfurases, are conserved in all homology models. It thus appears very likely that all members of the YgdK/SufE family act as enhancers of Suf-S-like desulfurases. The present study exemplifies that "refined" selection of two (or more) targets enables high-quality homology modeling of large protein families.

PubMed: 15930006
DOI: 10.1110/ps.041322705

実験手法

SOLUTION NMR