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| | ==Crystal Structure of D17E Isocyanide Hydratase from Pseudomonas fluorescens== | | ==Crystal Structure of D17E Isocyanide Hydratase from Pseudomonas fluorescens== |
| - | <StructureSection load='3nov' size='340' side='right' caption='[[3nov]], [[Resolution|resolution]] 1.05Å' scene=''> | + | <StructureSection load='3nov' size='340' side='right'caption='[[3nov]], [[Resolution|resolution]] 1.05Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[3nov]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_fluorescens_liquefaciens"_flugge_1886 "bacillus fluorescens liquefaciens" flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3NOV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3NOV FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[3nov]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_fluorescens Pseudomonas fluorescens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3NOV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3NOV FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene></td></tr> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.05Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3non|3non]], [[3noo|3noo]], [[3noq|3noq]], [[3nor|3nor]]</td></tr>
| + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">PFL_4109 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=294 "Bacillus fluorescens liquefaciens" Flugge 1886])</td></tr> | + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3nov FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3nov OCA], [https://pdbe.org/3nov PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3nov RCSB], [https://www.ebi.ac.uk/pdbsum/3nov PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3nov ProSAT]</span></td></tr> |
| - | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cyclohexyl-isocyanide_hydratase Cyclohexyl-isocyanide hydratase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.2.1.103 4.2.1.103] </span></td></tr>
| + | |
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3nov FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3nov OCA], [http://pdbe.org/3nov PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3nov RCSB], [http://www.ebi.ac.uk/pdbsum/3nov PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3nov ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/Q4K977_PSEF5 Q4K977_PSEF5] |
| | == Evolutionary Conservation == | | == Evolutionary Conservation == |
| | [[Image:Consurf_key_small.gif|200px|right]] | | [[Image:Consurf_key_small.gif|200px|right]] |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Bacillus fluorescens liquefaciens flugge 1886]] | + | [[Category: Large Structures]] |
| - | [[Category: Cyclohexyl-isocyanide hydratase]] | + | [[Category: Pseudomonas fluorescens]] |
| - | [[Category: Lakshminarasimhan, M]] | + | [[Category: Lakshminarasimhan M]] |
| - | [[Category: Madzelan, P]] | + | [[Category: Madzelan P]] |
| - | [[Category: Milkovic, N M]] | + | [[Category: Milkovic NM]] |
| - | [[Category: Nan, R]] | + | [[Category: Nan R]] |
| - | [[Category: Wilson, M A]] | + | [[Category: Wilson MA]] |
| - | [[Category: Dj-1 superfamily]]
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| - | [[Category: Isocyanide hydratase]]
| + | |
| - | [[Category: Isonitrile hydratase]]
| + | |
| - | [[Category: Lyase]]
| + | |
| Structural highlights
Function
Q4K977_PSEF5
Evolutionary Conservation
Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.
Publication Abstract from PubMed
Isocyanide (formerly isonitrile) hydratase (EC 4.2.1.103) is an enzyme of the DJ-1 superfamily that hydrates isocyanides to yield the corresponding N-formamide. In order to understand the structural basis for isocyanide hydratase (ICH) catalysis, we determined the crystal structures of wild-type and several site-directed mutants of Pseudomonas fluorescens ICH at resolutions ranging from 1.0 to 1.9 A. We also developed a simple UV-visible spectrophotometric assay for ICH activity using 2-naphthyl isocyanide as a substrate. ICH contains a highly conserved cysteine residue (Cys(101)) that is required for catalysis and interacts with Asp(17), Thr(102), and an ordered water molecule in the active site. Asp(17) has carboxylic acid bond lengths that are consistent with protonation, and we propose that it activates the ordered water molecule to hydrate organic isocyanides. In contrast to Cys(101) and Asp(17), Thr(102) is tolerant of mutagenesis, and the T102V mutation results in a substrate-inhibited enzyme. Although ICH is similar to human DJ-1 (1.6 A C-alpha root mean square deviation), structural differences in the vicinity of Cys(101) disfavor the facile oxidation of this residue that is functionally important in human DJ-1 but would be detrimental to ICH activity. The ICH active site region also exhibits surprising conformational plasticity and samples two distinct conformations in the crystal. ICH represents a previously uncharacterized clade of the DJ-1 superfamily that possesses a novel enzymatic activity, demonstrating that the DJ-1 core fold can evolve diverse functions by subtle modulation of the environment of a conserved, reactive cysteine residue.
Evolution of new enzymatic function by structural modulation of cysteine reactivity in Pseudomonas fluorescens isocyanide hydratase.,Lakshminarasimhan M, Madzelan P, Nan R, Milkovic NM, Wilson MA J Biol Chem. 2010 Sep 17;285(38):29651-61. Epub 2010 Jul 14. PMID:20630867[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Lakshminarasimhan M, Madzelan P, Nan R, Milkovic NM, Wilson MA. Evolution of new enzymatic function by structural modulation of cysteine reactivity in Pseudomonas fluorescens isocyanide hydratase. J Biol Chem. 2010 Sep 17;285(38):29651-61. Epub 2010 Jul 14. PMID:20630867 doi:10.1074/jbc.M110.147934
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