1uj6

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{{Seed}}
 
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[[Image:1uj6.png|left|200px]]
 
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==Crystal structure of Thermus thermophilus ribose-5-phosphate isomerase complexed with arabinose-5-phosphate==
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The line below this paragraph, containing "STRUCTURE_1uj6", creates the "Structure Box" on the page.
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<StructureSection load='1uj6' size='340' side='right'caption='[[1uj6]], [[Resolution|resolution]] 1.74&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[1uj6]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UJ6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1UJ6 FirstGlance]. <br>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.74&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=A5P:ARABINOSE-5-PHOSPHATE'>A5P</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
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{{STRUCTURE_1uj6| PDB=1uj6 | SCENE= }}
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1uj6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uj6 OCA], [https://pdbe.org/1uj6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1uj6 RCSB], [https://www.ebi.ac.uk/pdbsum/1uj6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1uj6 ProSAT], [https://www.topsan.org/Proteins/RSGI/1uj6 TOPSAN]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/RPIA_THET2 RPIA_THET2] Involved in the first step of the non-oxidative branch of the pentose phosphate pathway. It catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate. Can also act on D-ribose-5-diphosphate and D-ribose-5-triphosphate as substrate.<ref>PMID:13679361</ref>
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/uj/1uj6_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</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=1uj6 ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Ribose-5-phosphate isomerase (Rpi) acts as a key enzyme in the oxidative and reductive pentose-phosphate pathways for the conversion of ribose-5-phosphate (R5P) to ribulose-5-phosphate and vice versa. We have determined the crystal structures of Rpi from Thermus thermophilus HB8 in complex with the open chain form of the substrate R5P and the open chain form of the C2 epimeric inhibitor arabinose-5-phosphate as well as the apo form at high resolution. The crystal structures of both complexes revealed that these ring-opened epimers are bound in the active site in a mirror symmetry binding mode. The O1 atoms are stabilized by an oxyanion hole composed of the backbone amide nitrogens in the conserved motif. In the structure of the Rpi.R5P complex, the conversion moiety O1-C1-C2-O2 in cis-configuration interacts with the carboxyl oxygens of Glu-108 in a water-excluded environment. Furthermore, the C2 hydroxyl group is presumed to be highly polarized by short hydrogen bonding with the side chain of Lys-99. R5P bound as the ring-opened reaction intermediate clarified the high stereoselectivity of the catalysis and is consistent with an aldose-ketose conversion by Rpi that proceeds via a cis-enediolate intermediate.
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===Crystal structure of Thermus thermophilus ribose-5-phosphate isomerase complexed with arabinose-5-phosphate===
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Oxyanion hole-stabilized stereospecific isomerization in ribose-5-phosphate isomerase (Rpi).,Hamada K, Ago H, Sugahara M, Nodake Y, Kuramitsu S, Miyano M J Biol Chem. 2003 Dec 5;278(49):49183-90. Epub 2003 Sep 17. PMID:13679361<ref>PMID:13679361</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 1uj6" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_13679361}}, adds the Publication Abstract to the page
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*[[Ribose-5-phosphate isomerase 3D structures|Ribose-5-phosphate isomerase 3D structures]]
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(as it appears on PubMed at http://www.pubmed.gov), where 13679361 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_13679361}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Large Structures]]
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1UJ6 is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UJ6 OCA].
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==Reference==
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Oxyanion hole-stabilized stereospecific isomerization in ribose-5-phosphate isomerase (Rpi)., Hamada K, Ago H, Sugahara M, Nodake Y, Kuramitsu S, Miyano M, J Biol Chem. 2003 Dec 5;278(49):49183-90. Epub 2003 Sep 17. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/13679361 13679361]
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[[Category: Ribose-5-phosphate isomerase]]
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[[Category: Thermus thermophilus]]
[[Category: Thermus thermophilus]]
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[[Category: Ago, H.]]
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[[Category: Ago H]]
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[[Category: Hamada, K.]]
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[[Category: Hamada K]]
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[[Category: Kuramitsu, S.]]
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[[Category: Kuramitsu S]]
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[[Category: Miyano, M.]]
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[[Category: Miyano M]]
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[[Category: Nodake, Y.]]
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[[Category: Nodake Y]]
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[[Category: RSGI, RIKEN Structural Genomics/Proteomics Initiative.]]
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[[Category: Sugahara M]]
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[[Category: Sugahara, M.]]
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[[Category: Yokoyama S]]
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[[Category: Yokoyama, S.]]
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[[Category: Enzyme-inhibitor complex]]
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[[Category: Riken structural genomics/proteomics initiative]]
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[[Category: Rsgi]]
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[[Category: Structural genomic]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Nov 16 10:49:35 2008''
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Current revision

Crystal structure of Thermus thermophilus ribose-5-phosphate isomerase complexed with arabinose-5-phosphate

PDB ID 1uj6

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