2i8t

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (09:02, 21 February 2024) (edit) (undo)
 
(11 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:2i8t.jpg|left|200px]]
 
-
{{Structure
+
==GDP-mannose mannosyl hydrolase-calcium-GDP-mannose complex==
-
|PDB= 2i8t |SIZE=350|CAPTION= <scene name='initialview01'>2i8t</scene>, resolution 1.300&Aring;
+
<StructureSection load='2i8t' size='340' side='right'caption='[[2i8t]], [[Resolution|resolution]] 1.30&Aring;' scene=''>
-
|SITE=
+
== Structural highlights ==
-
|LIGAND= <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GDD:GUANOSINE-5&#39;-DIPHOSPHATE-ALPHA-D-MANNOSE'>GDD</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>
+
<table><tr><td colspan='2'>[[2i8t]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2I8T OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2I8T FirstGlance]. <br>
-
|ACTIVITY=
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.3&#8491;</td></tr>
-
|GENE= gmm ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GDD:GUANOSINE-5-DIPHOSPHATE-ALPHA-D-MANNOSE'>GDD</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-
|DOMAIN=
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2i8t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2i8t OCA], [https://pdbe.org/2i8t PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2i8t RCSB], [https://www.ebi.ac.uk/pdbsum/2i8t PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2i8t ProSAT]</span></td></tr>
-
|RELATEDENTRY=[[2i8o|2I8O]], [[2i8p|2I8P]], [[2i8q|2I8Q]], [[2i8r|2I8R]], [[2i8s|2I8S]], [[2i8u|2I8U]]
+
</table>
-
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2i8t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2i8t OCA], [http://www.ebi.ac.uk/pdbsum/2i8t PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2i8t RCSB]</span>
+
== Function ==
-
}}
+
[https://www.uniprot.org/uniprot/Q6XQ58_ECOLX Q6XQ58_ECOLX] Hydrolyzes GDP-mannose.[HAMAP-Rule:MF_00941]
-
 
+
== Evolutionary Conservation ==
-
'''GDP-mannose mannosyl hydrolase-calcium-GDP-mannose complex'''
+
[[Image:Consurf_key_small.gif|200px|right]]
-
 
+
Check<jmol>
-
 
+
<jmolCheckbox>
-
==Overview==
+
<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/i8/2i8t_consurf.spt"</scriptWhenChecked>
-
Diversity in the polysaccharide component of lipopolysaccharide (LPS) contributes to the persistence and pathogenesis of Gram-negative bacteria. The Nudix hydrolase GDP-mannose mannosyl hydrolase (Gmm) contributes to this diversity by regulating the concentration of mannose in LPS biosynthetic pathways. Here, we present seven high-resolution crystal structures of Gmm from the enteropathogenic E. coli strain O128: the structure of the apo enzyme, the cocrystal structure of Gmm bound to the product Mg2+-GDP, two cocrystal structures of precatalytic and turnover complexes of Gmm-Ca2+-GDP-alpha-d-mannose, and three cocrystal structures of an inactive mutant (His-124 --&gt; Leu) Gmm bound to substrates GDP-alpha-d-mannose, GDP-alpha-d-glucose, and GDP-beta-l-fucose. These crystal structures help explain the molecular basis for substrate specificity and promiscuity and provide a structural framework for reconciling previously determined kinetic parameters. Unexpectedly, these structures reveal concerted changes in the enzyme structure that result in the formation of a catalytically competent active site only in the presence of the substrate/product. These structural views of the enzyme may provide a rationale for the design of inhibitors that target the biosynthesis of LPS by pathogenic bacteria.
+
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
-
 
+
<text>to colour the structure by Evolutionary Conservation</text>
-
==About this Structure==
+
</jmolCheckbox>
-
2I8T is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2I8T OCA].
+
</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=2i8t ConSurf].
-
 
+
<div style="clear:both"></div>
-
==Reference==
+
__TOC__
-
Molecular basis for substrate selectivity and specificity by an LPS biosynthetic enzyme., Zou Y, Li C, Brunzelle JS, Nair SK, Biochemistry. 2007 Apr 10;46(14):4294-304. Epub 2007 Mar 20. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17371001 17371001]
+
</StructureSection>
[[Category: Escherichia coli]]
[[Category: Escherichia coli]]
-
[[Category: Single protein]]
+
[[Category: Large Structures]]
-
[[Category: Brunzelle, J S.]]
+
[[Category: Brunzelle JS]]
-
[[Category: Li, C.]]
+
[[Category: Li C]]
-
[[Category: Nair, S K.]]
+
[[Category: Nair SK]]
-
[[Category: Zou, Y.]]
+
[[Category: Zou Y]]
-
[[Category: lipopolysaccharide]]
+
-
[[Category: nudix enzyme]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 03:41:08 2008''
+

Current revision

GDP-mannose mannosyl hydrolase-calcium-GDP-mannose complex

PDB ID 2i8t

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2i8t"
Personal tools