2x5z

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (10:24, 20 December 2023) (edit) (undo)
 
(9 intermediate revisions not shown.)
Line 1: Line 1:
-
{{Seed}}
 
-
[[Image:2x5z.jpg|left|200px]]
 
-
<!--
+
==Crystal structure of T. maritima GDP-mannose pyrophosphorylase in complex with GDP-mannose.==
-
The line below this paragraph, containing "STRUCTURE_2x5z", creates the "Structure Box" on the page.
+
<StructureSection load='2x5z' size='340' side='right'caption='[[2x5z]], [[Resolution|resolution]] 2.70&Aring;' scene=''>
-
You may change the PDB parameter (which sets the PDB file loaded into the applet)
+
== Structural highlights ==
-
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+
<table><tr><td colspan='2'>[[2x5z]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermotoga_maritima_MSB8 Thermotoga maritima MSB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2X5Z OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2X5Z FirstGlance]. <br>
-
or leave the SCENE parameter empty for the default display.
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.7&#8491;</td></tr>
-
-->
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GDD:GUANOSINE-5-DIPHOSPHATE-ALPHA-D-MANNOSE'>GDD</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-
{{STRUCTURE_2x5z| PDB=2x5z | SCENE= }}
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2x5z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2x5z OCA], [https://pdbe.org/2x5z PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2x5z RCSB], [https://www.ebi.ac.uk/pdbsum/2x5z PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2x5z ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/Q9X0C3_THEMA Q9X0C3_THEMA]
 +
== 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/x5/2x5z_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=2x5z ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
GMP catalyzes the formation of GDP-Man, a fundamental precursor for protein glycosylation and bacterial cell wall and capsular polysaccharide biosynthesis. Crystal structures of GMP from the thermophilic bacterium Thermotoga maritima in the apo form, in complex with the substrates mannose-1-phosphate or GTP and bound with the end product GDP-Man in the presence of the essential divalent cation Mg(2+), were solved in the 2.1-2.8 A resolution range. The T. maritima GMP molecule is organized in two separate domains: a N-terminal Rossman fold-like domain and a C-terminal left-handed beta-helix domain. Two molecules associate into a dimer through a tail-to-tail arrangement of the C-terminal domains. Comparative analysis of the structures along with characterization of enzymatic parameters reveals the bases of substrate specificity of this class of sugar nucleotidyltransferases. In particular, substrate and product binding are associated with significant changes in the conformation of loop regions lining the active center and in the relative orientation of the two domains. Involvement of both the N- and C-terminal domains, coupled to the catalytic role of a bivalent metal ion, highlights the catalytic features of bacterial GMPs compared with other members of the pyrophosphorylase superfamily.
-
===CRYSTAL STRUCTURE OF T. MARITIMA GDP-MANNOSE PYROPHOSPHORYLASE IN COMPLEX WITH GDP-MANNOSE.===
+
Structural insights into the catalytic mechanism of bacterial guanosine-diphospho-D-mannose pyrophosphorylase and its regulation by divalent ions.,Pelissier MC, Lesley SA, Kuhn P, Bourne Y J Biol Chem. 2010 Aug 27;285(35):27468-76. Epub 2010 Jun 23. PMID:20573954<ref>PMID:20573954</ref>
-
 
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
==About this Structure==
+
</div>
-
2X5Z is a 2 chains structure with sequences from [http://en.wikipedia.org/wiki/Thermotoga_maritima Thermotoga maritima]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2X5Z OCA].
+
<div class="pdbe-citations 2x5z" style="background-color:#fffaf0;"></div>
-
[[Category: Mannose-1-phosphate guanylyltransferase]]
+
== References ==
-
[[Category: Thermotoga maritima]]
+
<references/>
-
[[Category: Bourne, Y.]]
+
__TOC__
-
[[Category: Kuhn, P.]]
+
</StructureSection>
-
[[Category: Lesley, S.]]
+
[[Category: Large Structures]]
-
[[Category: Pelissier, M C.]]
+
[[Category: Thermotoga maritima MSB8]]
-
[[Category: Nucleotidyl transferase]]
+
[[Category: Bourne Y]]
-
[[Category: Transferase]]
+
[[Category: Kuhn P]]
-
 
+
[[Category: Lesley S]]
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jun 23 08:46:50 2010''
+
[[Category: Pelissier MC]]

Current revision

Crystal structure of T. maritima GDP-mannose pyrophosphorylase in complex with GDP-mannose.

PDB ID 2x5z

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Personal tools