1gq2: Difference between revisions

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-[[Image:1gq2.gif|left|200px]]
-<!--
-The line below this paragraph, containing "STRUCTURE_1gq2", creates the "Structure Box" on the page.
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-{{STRUCTURE_1gq2|  PDB=1gq2  |  SCENE=  }}
-'''MALIC ENZYME FROM PIGEON LIVER'''
+==Malic Enzyme from Pigeon Liver==
+<StructureSection load='1gq2' size='340' side='right'caption='[[1gq2]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1gq2]] is a 16 chain structure with sequence from [https://en.wikipedia.org/wiki/Columba_livia Columba livia]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1GQ2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1GQ2 FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.5&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene>, <scene name='pdbligand=OXL:OXALATE+ION'>OXL</scene></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=1gq2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gq2 OCA], [https://pdbe.org/1gq2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1gq2 RCSB], [https://www.ebi.ac.uk/pdbsum/1gq2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1gq2 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/MAOX_COLLI MAOX_COLLI]
+== 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/gq/1gq2_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=1gq2 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Malic enzymes are widely distributed in nature, and have important biological functions. They catalyze the oxidative decarboxylation of malate to produce pyruvate and CO(2) in the presence of divalent cations (Mg(2+), Mn(2+)). Most malic enzymes have a clear selectivity for the dinucleotide cofactor, being able to use either NAD(+) or NADP(+), but not both. Structural studies of the human mitochondrial NAD(+)-dependent malic enzyme established that malic enzymes belong to a new class of oxidative decarboxylases. Here we report the crystal structure of the pigeon cytosolic NADP(+)-dependent malic enzyme, in a closed form, in a quaternary complex with NADP(+), Mn(2+), and oxalate. This represents the first structural information on an NADP(+)-dependent malic enzyme. Despite the sequence conservation, there are large differences in several regions of the pigeon enzyme structure compared to the human enzyme. One region of such differences is at the binding site for the 2'-phosphate group of the NADP(+) cofactor, which helps define the cofactor selectivity of the enzymes. Specifically, the structural information suggests Lys362 may have an important role in the NADP(+) selectivity of the pigeon enzyme, confirming our earlier kinetic observations on the K362A mutant. Our structural studies also revealed differences in the organization of the tetramer between the pigeon and the human enzymes, although the pigeon enzyme still obeys 222 symmetry.
-==Overview==
+Structural studies of the pigeon cytosolic NADP(+)-dependent malic enzyme.,Yang Z, Zhang H, Hung HC, Kuo CC, Tsai LC, Yuan HS, Chou WY, Chang GG, Tong L Protein Sci. 2002 Feb;11(2):332-41. PMID:11790843<ref>PMID:11790843</ref>
-Malic enzymes are widely distributed in nature, and have important biological functions. They catalyze the oxidative decarboxylation of malate to produce pyruvate and CO(2) in the presence of divalent cations (Mg(2+), Mn(2+)). Most malic enzymes have a clear selectivity for the dinucleotide cofactor, being able to use either NAD(+) or NADP(+), but not both. Structural studies of the human mitochondrial NAD(+)-dependent malic enzyme established that malic enzymes belong to a new class of oxidative decarboxylases. Here we report the crystal structure of the pigeon cytosolic NADP(+)-dependent malic enzyme, in a closed form, in a quaternary complex with NADP(+), Mn(2+), and oxalate. This represents the first structural information on an NADP(+)-dependent malic enzyme. Despite the sequence conservation, there are large differences in several regions of the pigeon enzyme structure compared to the human enzyme. One region of such differences is at the binding site for the 2'-phosphate group of the NADP(+) cofactor, which helps define the cofactor selectivity of the enzymes. Specifically, the structural information suggests Lys362 may have an important role in the NADP(+) selectivity of the pigeon enzyme, confirming our earlier kinetic observations on the K362A mutant. Our structural studies also revealed differences in the organization of the tetramer between the pigeon and the human enzymes, although the pigeon enzyme still obeys 222 symmetry.
-==About this Structure==
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-GQ2 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Columba_livia Columba livia]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1GQ2 OCA].
+</div>
+<div class="pdbe-citations 1gq2" style="background-color:#fffaf0;"></div>
-==Reference==
+==See Also==
-Structural studies of the pigeon cytosolic NADP(+)-dependent malic enzyme., Yang Z, Zhang H, Hung HC, Kuo CC, Tsai LC, Yuan HS, Chou WY, Chang GG, Tong L, Protein Sci. 2002 Feb;11(2):332-41. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11790843 11790843]
+*[[NADP-dependent malic enzyme|NADP-dependent malic enzyme]]
+== References ==
+<references/>
+__TOC__
+</StructureSection>
 [[Category: Columba livia]]
-[[Category: Single protein]]
+[[Category: Large Structures]]
-[[Category: Liang, T.]]
+[[Category: Liang T]]
-[[Category: Yang, Z.]]
+[[Category: Yang Z]]
-[[Category: Zhang, H.]]
+[[Category: Zhang H]]
-[[Category: Crystal structure]]
-[[Category: Decarboxylase]]
-[[Category: Malate]]
-[[Category: Malic enzyme]]
-[[Category: Mn2+]]
-[[Category: Nad-nadp selectivity]]
-[[Category: Nadp-dependent]]
-[[Category: Pigeon liver]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May  2 17:52:37 2008''