1syl
From Proteopedia
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|PDB= 1syl |SIZE=350|CAPTION= <scene name='initialview01'>1syl</scene>, resolution 1.95Å | |PDB= 1syl |SIZE=350|CAPTION= <scene name='initialview01'>1syl</scene>, resolution 1.95Å | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand= | + | |LIGAND= <scene name='pdbligand=DUT:DEOXYURIDINE-5'-TRIPHOSPHATE'>DUT</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene> |
| - | |ACTIVITY= [http://en.wikipedia.org/wiki/dUTP_diphosphatase dUTP diphosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.1.23 3.6.1.23] | + | |ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/dUTP_diphosphatase dUTP diphosphatase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.1.23 3.6.1.23] </span> |
|GENE= DUT ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli]) | |GENE= DUT ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli]) | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY=[[1rn8|1RN8]], [[1rnj|1RNJ]], [[1ro1|1RO1]], [[1seh|1SEH]] | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1syl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1syl OCA], [http://www.ebi.ac.uk/pdbsum/1syl PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1syl RCSB]</span> | ||
}} | }} | ||
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[[Category: Vertessy, B G.]] | [[Category: Vertessy, B G.]] | ||
[[Category: Wilmanns, M.]] | [[Category: Wilmanns, M.]] | ||
| - | [[Category: DUT]] | ||
| - | [[Category: MG]] | ||
| - | [[Category: TRS]] | ||
[[Category: enzyme-ligand complex]] | [[Category: enzyme-ligand complex]] | ||
[[Category: jelly roll]] | [[Category: jelly roll]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 23 | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 23:48:44 2008'' |
Revision as of 20:48, 30 March 2008
| |||||||
| , resolution 1.95Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , , | ||||||
| Gene: | DUT (Escherichia coli) | ||||||
| Activity: | dUTP diphosphatase, with EC number 3.6.1.23 | ||||||
| Related: | 1RN8, 1RNJ, 1RO1, 1SEH
| ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Crystal structure of inactive mutant dUTPase complexed with substrate dUTP
Overview
dUTPase is essential to keep uracil out of DNA. Crystal structures of substrate (dUTP and alpha,beta-imino-dUTP) and product complexes of wild type and mutant dUTPases were determined to reveal how an enzyme responsible for DNA integrity functions. A kinetic analysis of wild type and mutant dUTPases was performed to obtain relevant mechanistic information in solution. Substrate hydrolysis is shown to be initiated via in-line nucleophile attack of a water molecule oriented by an activating conserved aspartate residue. Substrate binding in a catalytically competent conformation is achieved by (i) multiple interactions of the triphosphate moiety with catalysis-assisting Mg2+, (ii) a concerted motion of residues from three conserved enzyme motifs as compared with the apoenzyme, and (iii) an intricate hydrogen-bonding network that includes several water molecules in the active site. Results provide an understanding for the catalytic role of conserved residues in dUTPases.
About this Structure
1SYL is a Single protein structure of sequence from Escherichia coli. Full crystallographic information is available from OCA.
Reference
Structural insights into the catalytic mechanism of phosphate ester hydrolysis by dUTPase., Barabas O, Pongracz V, Kovari J, Wilmanns M, Vertessy BG, J Biol Chem. 2004 Oct 8;279(41):42907-15. Epub 2004 Jun 17. PMID:15208312
Page seeded by OCA on Sun Mar 30 23:48:44 2008
