1cev: Difference between revisions

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==ARGINASE FROM BACILLUS CALDOVELOX, NATIVE STRUCTURE AT PH 5.6==
==ARGINASE FROM BACILLUS CALDOVELOX, NATIVE STRUCTURE AT PH 5.6==
<StructureSection load='1cev' size='340' side='right' caption='[[1cev]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
<StructureSection load='1cev' size='340' side='right'caption='[[1cev]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[1cev]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/'bacillus_caldovelox' 'bacillus caldovelox']. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CEV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1CEV FirstGlance]. <br>
<table><tr><td colspan='2'>[[1cev]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_caldovelox Bacillus caldovelox]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CEV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1CEV FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</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]] 2.4&#8491;</td></tr>
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Arginase Arginase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.3.1 3.5.3.1] </span></td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></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=1cev FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cev OCA], [http://pdbe.org/1cev PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1cev RCSB], [http://www.ebi.ac.uk/pdbsum/1cev PDBsum]</span></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=1cev FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cev OCA], [https://pdbe.org/1cev PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1cev RCSB], [https://www.ebi.ac.uk/pdbsum/1cev PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1cev ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
[[http://www.uniprot.org/uniprot/ARGI_BACCD ARGI_BACCD]] Controls arginine catabolism.  
[https://www.uniprot.org/uniprot/ARGI_BACCD ARGI_BACCD] Controls arginine catabolism.
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
Check<jmol>
   <jmolCheckbox>
   <jmolCheckbox>
     <scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ce/1cev_consurf.spt"</scriptWhenChecked>
     <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ce/1cev_consurf.spt"</scriptWhenChecked>
     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
     <text>to colour the structure by Evolutionary Conservation</text>
Line 19: Line 20:
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1cev ConSurf].
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1cev ConSurf].
<div style="clear:both"></div>
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
BACKGROUND: Arginase is a manganese-dependent enzyme that catalyzes the hydrolysis of L-arginine to L-ornithine and urea. In ureotelic animals arginase is the final enzyme of the urea cycle, but in many species it has a wider role controlling the use of arginine for other metabolic purposes, including the production of creatine, polyamines, proline and nitric oxide. Arginase activity is regulated by various small molecules, including the product L-ornithine. The aim of these structural studies was to test aspects of the catalytic mechanism and to investigate the structural basis of arginase inhibition. RESULTS: We report here the crystal structures of arginase from Bacillus caldovelox at pH 5.6 and pH 8.5, and of binary complexes of the enzyme with L-arginine, L-ornithine and L-lysine at pH 8.5. The arginase monomer comprises a single compact alpha/beta domain that further associates into a hexameric quaternary structure. The binary complexes reveal a common mode of ligand binding, which places the substrate adjacent to the dimanganese centre. We also observe a conformational change that impacts on the active site and is coupled with the occupancy of an external site by guanidine or arginine. CONCLUSIONS: The structures reported here clarify aspects of the active site and indicate key features of the catalytic mechanism, including substrate coordination to one of the manganese ions and an orientational role for a neighboring histidine residue. Stereospecificity for L-amino acids is found to depend on their precise recognition at the active-site rim. Identification of a second arginine-binding site, remote from the active site, and associated conformational changes lead us to propose a regulatory role for this site in substrate hydrolysis.
Crystal structures of Bacillus caldovelox arginase in complex with substrate and inhibitors reveal new insights into activation, inhibition and catalysis in the arginase superfamily.,Bewley MC, Jeffrey PD, Patchett ML, Kanyo ZF, Baker EN Structure. 1999 Apr 15;7(4):435-48. PMID:10196128<ref>PMID:10196128</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 1cev" style="background-color:#fffaf0;"></div>


==See Also==
==See Also==
*[[Arginase|Arginase]]
*[[Arginase 3D structures|Arginase 3D structures]]
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Bacillus caldovelox]]
[[Category: Large Structures]]
[[Category: Arginase]]
[[Category: Baker EN]]
[[Category: Baker, E N]]
[[Category: Bewley MC]]
[[Category: Bewley, M C]]
[[Category: Jeffrey PD]]
[[Category: Jeffrey, P D]]
[[Category: Kanyo ZF]]
[[Category: Kanyo, Z F]]
[[Category: Patchett ML]]
[[Category: Patchett, M L]]
[[Category: Arginine hydrolysis]]
[[Category: Enzyme]]
[[Category: Hydrolase]]
[[Category: Manganese metalloenzyme]]
[[Category: Nitrogen metabolism]]

Latest revision as of 08:57, 3 April 2024

ARGINASE FROM BACILLUS CALDOVELOX, NATIVE STRUCTURE AT PH 5.6ARGINASE FROM BACILLUS CALDOVELOX, NATIVE STRUCTURE AT PH 5.6

Structural highlights

1cev is a 6 chain structure with sequence from Bacillus caldovelox. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.4Å
Ligands:
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

ARGI_BACCD Controls arginine catabolism.

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

See Also

1cev, resolution 2.40Å

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