1WND

Escherichia coli YdcW gene product is a medium-chain aldehyde dehydrogenase as determined by kinetics and crystal structure

Summary for 1WND

• Entry DOI: 10.2210/pdb1wnd/pdb
• Related: 1WNB
• Descriptor: Putative betaine aldehyde dehydrogenase, CALCIUM ION (3 entities in total)
• Functional Keywords: aldehyde dehydrogenase, nadh, fluorescence, kinetics, oxidoreductase
• Biological source: Escherichia coli
• Total number of polymer chains: 4
• Total formula weight: 213798.66

Authors

Gruez, A.,Roig-Zamboni, V.,Tegoni, M.,Cambillau, C. (deposition date: 2004-07-29, release date: 2004-10-05, Last modification date: 2024-03-13)

Primary citation

Gruez, A.,Roig-Zamboni, V.,Grisel, S.,Salomoni, A.,Valencia, C.,Campanacci, V.,Tegoni, M.,Cambillau, C.
Crystal Structure and Kinetics Identify Escherichia coli YdcW Gene Product as a Medium-chain Aldehyde Dehydrogenase
J.Mol.Biol., 343:29-41, 2004

PubMed Abstract: In the context of a medium-scaled structural genomics program aiming at solving the structures of as many as possible bacterial unknown open reading frame products from Escherichia coli (Y prefix), we have solved the structure of YdcW at 2.1A resolution, using molecular replacement. According to its sequence identity, YdcW has been classified into the betaine aldehyde dehydrogenases family (EC 1.2.1.8), catalysing the oxidation of betaine aldehyde into glycine betaine. The structure of YdcW resembles that of other aldehyde dehydrogenases: it is tetrameric and binds a NADH molecule in each monomer. The NADH molecules, bound in the active site by soaking, are revealed to be in the "hydrolysis position". Activities experiments demonstrate that YdcW is more active on medium-chains aldehyde than on betaine aldehyde. However, soaking of betaine into YdcW crystals revealed its presence in one of the subunits, in two positions, a putative resting position and a hydride transfer ready position. Analysis of kinetics data and of the active site shape suggest an optimum binding of n-alkyl aldehydes up to seven to eight carbon atoms, possibly followed by a bulky cyclic or aromatic group.

PubMed: 15381418
DOI: 10.1016/j.jmb.2004.08.030

Experimental method

X-RAY DIFFRACTION (2.1 Å)