1q13: Difference between revisions

← Older edit

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

OCA

@@ Line 3: / Line 3: @@
 <StructureSection load='1q13' size='340' side='right'caption='[[1q13]], [[Resolution|resolution]] 2.08&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[1q13]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/European_rabbit European rabbit]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Q13 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1Q13 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[1q13]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Oryctolagus_cuniculus Oryctolagus cuniculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Q13 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1Q13 FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TES:TESTOSTERONE'>TES</scene></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.08&#8491;</td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1q13 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1q13 OCA], [http://pdbe.org/1q13 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1q13 RCSB], [http://www.ebi.ac.uk/pdbsum/1q13 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1q13 ProSAT]</span></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=TES:TESTOSTERONE'>TES</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=1q13 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1q13 OCA], [https://pdbe.org/1q13 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1q13 RCSB], [https://www.ebi.ac.uk/pdbsum/1q13 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1q13 ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/PE2R_RABIT PE2R_RABIT]] Can convert prostaglandin E2 to prostaglandin F2-alpha.
+[https://www.uniprot.org/uniprot/PE2R_RABIT PE2R_RABIT] Can convert prostaglandin E2 to prostaglandin F2-alpha.
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 19: / Line 20: @@
 </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=1q13 ConSurf].
 <div style="clear:both"></div>
-<div style="background-color:#fffaf0;">
-== Publication Abstract from PubMed ==
-The aldo-keto reductase rabbit 20alpha-hydroxysteroid dehydrogenase (rb20alpha-HSD; AKR1C5) is less selective than other HSDs, since it exerts its activity both on androgens (C19 steroids) and progestins (C21 steroids). In order to identify the molecular determinants responsible for this reduced selectivity, binary (NADPH) and ternary (NADP(+)/testosterone) complex structures were solved to 1.32A and 2.08A resolution, respectively. Inspection of the cofactor-binding cavity led to the identification of a new interaction between side-chains of residues His222 and Lys270, which cover the central phosphate chain of the cofactor, reminiscent of the "safety-belt" found in other aldo-keto reductases. Testosterone is stabilized by a phenol/benzene tunnel composed of side-chains of numerous residues, among which Phe54, which forces the steroid to take up an orientation markedly contrasting with that found in HSD ternary complexes reported. Combining structural, site-directed mutagenesis, kinetic and fluorescence titration studies, we found that the selectivity of rb20alpha-HSD is mediated by (i) the relaxation of loop B (residues 223-230), partly controlled by the nature of residue 230, (ii) the nature of the residue found at position 54, and (iii) the residues found in the C-terminal tail of the protein especially the side-chain of the amino acid 306.
-Loop relaxation, a mechanism that explains the reduced specificity of rabbit 20alpha-hydroxysteroid dehydrogenase, a member of the aldo-keto reductase superfamily.,Couture JF, Legrand P, Cantin L, Labrie F, Luu-The V, Breton R J Mol Biol. 2004 May 21;339(1):89-102. PMID:15123423<ref>PMID:15123423</ref>
-From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-</div>
-<div class="pdbe-citations 1q13" style="background-color:#fffaf0;"></div>
 ==See Also==
 *[[Hydroxysteroid dehydrogenase 3D structures|Hydroxysteroid dehydrogenase 3D structures]]
-== References ==
-<references/>
 __TOC__
 </StructureSection>
-[[Category: European rabbit]]
 [[Category: Large Structures]]
-[[Category: Breton, R]]
+[[Category: Oryctolagus cuniculus]]
-[[Category: Cantin, L]]
+[[Category: Breton R]]
-[[Category: Couture, J F]]
+[[Category: Cantin L]]
-[[Category: Labrie, F]]
+[[Category: Couture J-F]]
-[[Category: Legrand, P]]
+[[Category: Labrie F]]
-[[Category: Luu-The, V]]
+[[Category: Legrand P]]
-[[Category: 20alpha-hsd]]
+[[Category: Luu-The V]]
-[[Category: Akr]]
-[[Category: Aldo-keto reductase]]
-[[Category: Hydroxysteroid dehydrogenase]]
-[[Category: Oxidoreductase]]
-[[Category: Ternary complex]]
-[[Category: Testosterone]]
-[[Category: Tim-barrel]]