The Crystal Structures of Dihydropyrimidinases Reaffirm the Close Relationship between Cyclic Amidohydrolases and Explain Their Substrate Specificity
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TLDR
The extension of one of the sheets of the β-sandwich domain across a subunit-subunit interface in yeast dihydropyrimidinase underlines its closer evolutionary relationship to hydantoinases, whereas the slime mold enzyme shows higher similarity to the noncatalytic collapsin-response mediator proteins involved in neuron development.About:
This article is published in Journal of Biological Chemistry.The article was published on 2006-05-12 and is currently open access. It has received 55 citations till now. The article focuses on the topics: Dihydropyrimidinase & Amidohydrolase.read more
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Journal ArticleDOI
The structure of human collapsin response mediator protein 2, a regulator of axonal growth.
Pål Stenmark,D. Ogg,Susanne Flodin,A. Flores,T. Kotenyova,Tomas Nyman,P. Nordlund,Petri Kursula +7 more
TL;DR: The crystal structure of human tetrameric CRMP‐2 is determined, which is structurally related to the dihydropyriminidases; however, the active site is not conserved.
Journal ArticleDOI
Dihydropyrimidinase deficiency : Phenotype, genotype and structural consequences in 17 patients
André B. P. van Kuilenburg,Doreen Dobritzsch,Judith Meijer,Rutger Meinsma,Jean-François Benoist,Birgit Assmann,Susanne Schubert,Georg F. Hoffmann,Marinus Duran,Maaike de Vries,Gerd Kurlemann,François Eyskens,Lawrence Greed,Jörn Oliver Sass,K Otfried Schwab,Adrian C. Sewell,John H. Walter,Andreas Hahn,Lida Zoetekouw,Antonia Ribes,Suzanne Lind,Raoul C.M. Hennekam +21 more
TL;DR: Clinical, biochemical and molecular findings of 17 newly identified DHP deficient patients as well as the analysis of the mutations in a three-dimensional framework indicate that DHP deficiency may be more common than anticipated.
Journal ArticleDOI
The crystal structure of Escherichia coli TdcF, a member of the highly conserved YjgF/YER057c/UK114 family
Julia Burman,Julia Burman,Clare E. M. Stevenson,R. Gary Sawers,R. Gary Sawers,David M. Lawson +5 more
TL;DR: The crystal structure of E. coli TdcF is determined and it is shown that TDCF is capable of binding several low molecular weight metabolites bearing a carboxylate group, although the interaction with 2-ketobutyrate appears to be the most well defined.
Journal ArticleDOI
A second pathway to degrade pyrimidine nucleic acid precursors in eukaryotes.
Gorm Andersen,Olof Björnberg,Silvia Polakova,Yuriy Pynyaha,Anna Rasmussen,Kasper Møller,Anders Hofer,Thomas Moritz,Michael P. B. Sandrini,Michael P. B. Sandrini,Annamaria Merico,Concetta Compagno,Hans-Erik Åkerlund,Zoran Gojković,Jure Piškur,Jure Piškur +15 more
TL;DR: The URC pathway does not require the presence of an active respiratory chain and is therefore different from the oxidative and rut pathways described in prokaryotes, although the latter also gives 3-hydroxypropionic acid as the end product.
Journal ArticleDOI
Inhibition of a Putative Dihydropyrimidinase from Pseudomonas aeruginosa PAO1 by Flavonoids and Substrates of Cyclic Amidohydrolases.
TL;DR: This study was the first to demonstrate that naturally occurring product dihydromyricetin inhibited dihydropyrimidinase, even more than the substrate analogs (>3 orders of magnitude).
References
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A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding
TL;DR: This assay is very reproducible and rapid with the dye binding process virtually complete in approximately 2 min with good color stability for 1 hr with little or no interference from cations such as sodium or potassium nor from carbohydrates such as sucrose.
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Coot: model-building tools for molecular graphics.
Paul Emsley,Kevin Cowtan +1 more
TL;DR: CCP4mg is a project that aims to provide a general-purpose tool for structural biologists, providing tools for X-ray structure solution, structure comparison and analysis, and publication-quality graphics.
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PROCHECK: a program to check the stereochemical quality of protein structures
TL;DR: The PROCHECK suite of programs as mentioned in this paper provides a detailed check on the stereochemistry of a protein structure and provides an assessment of the overall quality of the structure as compared with well refined structures of the same resolution.
Journal ArticleDOI
The CCP4 suite: programs for protein crystallography
TL;DR: The CCP4 (Collaborative Computational Project, number 4) program suite is a collection of programs and associated data and subroutine libraries which can be used for macromolecular structure determination by X-ray crystallography.