1ovm
From Proteopedia
| Line 4: | Line 4: | ||
|PDB= 1ovm |SIZE=350|CAPTION= <scene name='initialview01'>1ovm</scene>, resolution 2.65Å | |PDB= 1ovm |SIZE=350|CAPTION= <scene name='initialview01'>1ovm</scene>, resolution 2.65Å | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene> | + | |LIGAND= <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=TPP:THIAMINE+DIPHOSPHATE'>TPP</scene> |
| - | |ACTIVITY= [http://en.wikipedia.org/wiki/Indolepyruvate_decarboxylase Indolepyruvate decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.74 4.1.1.74] | + | |ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Indolepyruvate_decarboxylase Indolepyruvate decarboxylase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.1.1.74 4.1.1.74] </span> |
|GENE= IPDC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=550 Enterobacter cloacae]) | |GENE= IPDC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=550 Enterobacter cloacae]) | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY= | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ovm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ovm OCA], [http://www.ebi.ac.uk/pdbsum/1ovm PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1ovm RCSB]</span> | ||
}} | }} | ||
| Line 29: | Line 32: | ||
[[Category: Schneider, G.]] | [[Category: Schneider, G.]] | ||
[[Category: Schutz, A.]] | [[Category: Schutz, A.]] | ||
| - | [[Category: MG]] | ||
| - | [[Category: TPP]] | ||
[[Category: decarboxylase]] | [[Category: decarboxylase]] | ||
[[Category: indole-3-acetic acid]] | [[Category: indole-3-acetic acid]] | ||
| Line 37: | Line 38: | ||
[[Category: thiamine diphosphate]] | [[Category: thiamine diphosphate]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 22:50:57 2008'' |
Revision as of 19:51, 30 March 2008
| |||||||
| , resolution 2.65Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , | ||||||
| Gene: | IPDC (Enterobacter cloacae) | ||||||
| Activity: | Indolepyruvate decarboxylase, with EC number 4.1.1.74 | ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Crystal structure of Indolepyruvate decarboxylase from Enterobacter cloacae
Overview
The thiamin diphosphate-dependent enzyme indolepyruvate decarboxylase catalyses the formation of indoleacetaldehyde from indolepyruvate, one step in the indolepyruvate pathway of biosynthesis of the plant hormone indole-3-acetic acid. The crystal structure of this enzyme from Enterobacter cloacae has been determined at 2.65 A resolution and refined to a crystallographic R-factor of 20.5% (Rfree 23.6%). The subunit of indolepyruvate decarboxylase contains three domains of open alpha/beta topology, which are similar in structure to that of pyruvate decarboxylase. The tetramer has pseudo 222 symmetry and can be described as a dimer of dimers. It resembles the tetramer of pyruvate decarboxylase from Zymomonas mobilis, but with a relative difference of 20 degrees in the angle between the two dimers. Active site residues are highly conserved in indolepyruvate/pyruvate decarboxylase, suggesting that the interactions with the cofactor thiamin diphosphate and the catalytic mechanisms are very similar. The substrate binding site in indolepyruvate decarboxylase contains a large hydrophobic pocket which can accommodate the bulky indole moiety of the substrate. In pyruvate decarboxylases this pocket is smaller in size and allows discrimination of larger vs. smaller substrates. In most pyruvate decarboxylases, restriction of cavity size is due to replacement of residues at three positions by large, hydrophobic amino acids such as tyrosine or tryptophan.
About this Structure
1OVM is a Single protein structure of sequence from Enterobacter cloacae. Full crystallographic information is available from OCA.
Reference
Crystal structure of thiamindiphosphate-dependent indolepyruvate decarboxylase from Enterobacter cloacae, an enzyme involved in the biosynthesis of the plant hormone indole-3-acetic acid., Schutz A, Sandalova T, Ricagno S, Hubner G, Konig S, Schneider G, Eur J Biochem. 2003 May;270(10):2312-21. PMID:12752451
Page seeded by OCA on Sun Mar 30 22:50:57 2008
