1im5: Difference between revisions

From Proteopedia
Jump to navigation Jump to search
New page: left|200px<br /><applet load="1im5" size="450" color="white" frame="true" align="right" spinBox="true" caption="1im5, resolution 1.65Å" /> '''Crystal Structure of...
 
No edit summary
 
(14 intermediate revisions by the same user not shown)
Line 1: Line 1:
[[Image:1im5.jpg|left|200px]]<br /><applet load="1im5" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1im5, resolution 1.65&Aring;" />
'''Crystal Structure of Pyrazinamidase of Pyrococcus horikoshii in Complex with Zinc'''<br />


==Overview==
==Crystal Structure of Pyrazinamidase of Pyrococcus horikoshii in Complex with Zinc==
Bacterial pyrazinamidase (PZAase)/nicotinamidase converts pyrazinamide, (PZA) to ammonia and pyrazinoic acid, which is active against, Mycobacterium tuberculosis. Loss of PZAase activity is the major mechanism, of pyrazinamide-resistance by M. tuberculosis. We have determined the, crystal structure of the gene product of Pyrococcus horikoshii 999, (PH999), a PZAase, and its complex with zinc ion by X-ray crystallography., The overall fold of PH999 is similar to that of N-carbamoylsarcosine, amidohydrolase (CSHase) of Arthrobacter sp. and YcaC of Escherichia coli, a protein with unknown physiological function. The active site of PH999, was identified by structural features that are also present in the active, sites of CSHase and YcaC: a triad (D10, K94, and C133) and a cis-peptide, (between V128 and A129). Surprisingly, a metal ion-binding site was, revealed in the active site and subsequently confirmed by crystal, structure of PH999 in complex with Zn(2+). The roles of the triad, cis-peptide, and metal ion in the catalysis are proposed. Because of, extensive homology between PH999 and PZAase of M. tuberculosis (37%, sequence identity), the structure of PH999 provides a structural basis for, understanding PZA-resistance by M. tuberculosis harboring PZAase, mutations.
<StructureSection load='1im5' size='340' side='right'caption='[[1im5]], [[Resolution|resolution]] 1.65&Aring;' scene=''>
 
== Structural highlights ==
==About this Structure==
<table><tr><td colspan='2'>[[1im5]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_horikoshii Pyrococcus horikoshii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1IM5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1IM5 FirstGlance]. <br>
1IM5 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Pyrococcus_horikoshii Pyrococcus horikoshii] with ZN as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Nicotinamidase Nicotinamidase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.1.19 3.5.1.19] Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1IM5 OCA].
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.65&#8491;</td></tr>
 
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
==Reference==
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1im5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1im5 OCA], [https://pdbe.org/1im5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1im5 RCSB], [https://www.ebi.ac.uk/pdbsum/1im5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1im5 ProSAT]</span></td></tr>
Crystal structure and mechanism of catalysis of a pyrazinamidase from Pyrococcus horikoshii., Du X, Wang W, Kim R, Yakota H, Nguyen H, Kim SH, Biochemistry. 2001 Nov 27;40(47):14166-72. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=11714269 11714269]
</table>
[[Category: Nicotinamidase]]
== Function ==
[https://www.uniprot.org/uniprot/O58727_PYRHO O58727_PYRHO]
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
  <jmolCheckbox>
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/im/1im5_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
    <text>to colour the structure by Evolutionary Conservation</text>
  </jmolCheckbox>
</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=1im5 ConSurf].
<div style="clear:both"></div>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Pyrococcus horikoshii]]
[[Category: Pyrococcus horikoshii]]
[[Category: Single protein]]
[[Category: Du X]]
[[Category: Du, X.]]
[[Category: Kim S-H]]
[[Category: Kim, S.H.]]
[[Category: ZN]]
[[Category: amidase]]
[[Category: covalent catalysis]]
[[Category: cysteine hydrolase]]
[[Category: drug resistance]]
[[Category: hydrolase]]
[[Category: metal ion catalysis]]
[[Category: nicotinamidase]]
[[Category: pyrazinamidase]]
[[Category: pyrazinamide]]
[[Category: pza resistance]]
[[Category: tuberculosis]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sat Nov 24 22:12:42 2007''

Latest revision as of 10:36, 7 February 2024

Crystal Structure of Pyrazinamidase of Pyrococcus horikoshii in Complex with ZincCrystal Structure of Pyrazinamidase of Pyrococcus horikoshii in Complex with Zinc

Structural highlights

1im5 is a 1 chain structure with sequence from Pyrococcus horikoshii. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.65Å
Ligands:
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

O58727_PYRHO

Evolutionary Conservation

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

1im5, resolution 1.65Å

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA
Retrieved from "https://proteopedia.openfox.io/wiki/index.php?title=1im5&oldid=4045071"