2duu: Difference between revisions

← Older edit

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

OCA

@@ Line 1: / Line 1: @@
-[[Image:2duu.gif|left|200px]]
- {{Structure
+==Crystal Structure of apo-form of NADP-Dependent Glyceraldehyde-3-Phosphate Dehydrogenase from Synechococcus Sp.==
-|PDB= 2duu |SIZE=350|CAPTION= <scene name='initialview01'>2duu</scene>, resolution 2.9&Aring;
+<StructureSection load='2duu' size='340' side='right'caption='[[2duu]], [[Resolution|resolution]] 2.90&Aring;' scene=''>
-|SITE=
+== Structural highlights ==
-|LIGAND= <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>
+<table><tr><td colspan='2'>[[2duu]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Synechococcus_elongatus_PCC_7942_=_FACHB-805 Synechococcus elongatus PCC 7942 = FACHB-805]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DUU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2DUU FirstGlance]. <br>
-|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Glyceraldehyde-3-phosphate_dehydrogenase_(NADP(+))_(phosphorylating) Glyceraldehyde-3-phosphate dehydrogenase (NADP(+)) (phosphorylating)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.2.1.13 1.2.1.13] </span>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.9&#8491;</td></tr>
-|GENE=
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=2duu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2duu OCA], [https://pdbe.org/2duu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2duu RCSB], [https://www.ebi.ac.uk/pdbsum/2duu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2duu ProSAT]</span></td></tr>
-|RELATEDENTRY=[[2d2i|2D2I]]
+</table>
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2duu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2duu OCA], [http://www.ebi.ac.uk/pdbsum/2duu PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2duu RCSB]</span>
+== Function ==
-}}
+[https://www.uniprot.org/uniprot/Q9R6W2_SYNE7 Q9R6W2_SYNE7]
+== Evolutionary Conservation ==
-'''Crystal Structure of apo-form of NADP-Dependent Glyceraldehyde-3-Phosphate Dehydrogenase from Synechococcus Sp.'''
+[[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/du/2duu_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=2duu ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
 The crystal structure of NADP-dependent apo-glyceraldehyde-3-phosphate dehydrogenase (apo-GAPDH) from Synechococcus PCC 7942 is reported. The crystal structure was solved by molecular replacement and refined to an R of 21.7% and R(free) of 27.5% at 2.9 angstroms resolution. The structural features of apo-GAPDH are as follows. The S-loop has an extremely flexible conformation and the sulfate ion is only taken into the classical P(i) site. A structural comparison with holo-GAPDHs indicated that the S-loop fixation is essential in the discrimination of NADP and NAD molecules.
-==About this Structure==
+Structure of apo-glyceraldehyde-3-phosphate dehydrogenase from Synechococcus PCC7942.,Kitatani T, Nakamura Y, Wada K, Kinoshita T, Tamoi M, Shigeoka S, Tada T Acta Crystallogr Sect F Struct Biol Cryst Commun. 2006 Aug 1;62(Pt, 8):727-30. Epub 2006 Jul 29. PMID:16880542<ref>PMID:16880542</ref>
-DUU is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Synechococcus_sp. Synechococcus sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DUU OCA].
-==Reference==
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-Structure of apo-glyceraldehyde-3-phosphate dehydrogenase from Synechococcus PCC7942., Kitatani T, Nakamura Y, Wada K, Kinoshita T, Tamoi M, Shigeoka S, Tada T, Acta Crystallogr Sect F Struct Biol Cryst Commun. 2006 Aug 1;62(Pt, 8):727-30. Epub 2006 Jul 29. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16880542 16880542]
+</div>
-[[Category: Glyceraldehyde-3-phosphate dehydrogenase (NADP(+)) (phosphorylating)]]
+<div class="pdbe-citations 2duu" style="background-color:#fffaf0;"></div>
-[[Category: Single protein]]
-[[Category: Synechococcus sp.]]
-[[Category: Kinoshita, T.]]
-[[Category: Kitatani, T.]]
-[[Category: Nakamura, Y.]]
-[[Category: Shigeoka, S.]]
-[[Category: Tada, T.]]
-[[Category: Tamoi, M.]]
-[[Category: Wada, K.]]
-[[Category: apo-form]]
-[[Category: glyceraldehyde 3-phosphate dehydrogenase]]
-[[Category: rossmann fold]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 02:39:48 2008''
+==See Also==
+*[[Glyceraldehyde-3-phosphate dehydrogenase 3D structures|Glyceraldehyde-3-phosphate dehydrogenase 3D structures]]
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
+[[Category: Synechococcus elongatus PCC 7942 = FACHB-805]]
+[[Category: Kinoshita T]]
+[[Category: Kitatani T]]
+[[Category: Nakamura Y]]
+[[Category: Shigeoka S]]
+[[Category: Tada T]]
+[[Category: Tamoi M]]
+[[Category: Wada K]]