3gz8

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{{Seed}}
 
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[[Image:3gz8.jpg|left|200px]]
 
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==Cocrystal structure of NUDIX domain of Shewanella oneidensis NrtR complexed with ADP ribose==
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The line below this paragraph, containing "STRUCTURE_3gz8", creates the "Structure Box" on the page.
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<StructureSection load='3gz8' size='340' side='right'caption='[[3gz8]], [[Resolution|resolution]] 2.43&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'>[[3gz8]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Shewanella_oneidensis Shewanella oneidensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GZ8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3GZ8 FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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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]] 2.43&#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=APR:ADENOSINE-5-DIPHOSPHORIBOSE'>APR</scene></td></tr>
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{{STRUCTURE_3gz8| PDB=3gz8 | 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=3gz8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3gz8 OCA], [https://pdbe.org/3gz8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3gz8 RCSB], [https://www.ebi.ac.uk/pdbsum/3gz8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3gz8 ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/Q8EFJ3_SHEON Q8EFJ3_SHEON]
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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/gz/3gz8_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.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=3gz8 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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Besides its function as an essential redox cofactor, nicotinamide adenine dinucleotide (NAD) also serves as a consumable substrate for several reactions with broad impact on many cellular processes. NAD homeostasis appears to be tightly controlled, but the mechanism of its regulation is little understood. Here we demonstrate that a previously predicted bacterial transcriptional regulator, NrtR, represses the transcription of NAD biosynthetic genes in vitro. The NAD metabolite ADP-ribose functions as an activator suppressing NrtR repressor activity. The presence of high ADP-ribose levels in the cell is indicative of active NAD turnover in bacteria, which could signal the activation of NAD biosynthetic gene expression via inhibiting the repressor function of NrtR. By comparing the crystal structures of NrtR in complex with DNA and with ADP-ribose, we identified a "Nudix switch" element that likely plays a critical role in the allosteric regulation of DNA binding and repressor function of NrtR.
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===Cocrystal structure of NUDIX domain of Shewanella oneidensis NrtR complexed with ADP ribose===
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Structure and function of an ADP-ribose-dependent transcriptional regulator of NAD metabolism.,Huang N, De Ingeniis J, Galeazzi L, Mancini C, Korostelev YD, Rakhmaninova AB, Gelfand MS, Rodionov DA, Raffaelli N, Zhang H Structure. 2009 Jul 15;17(7):939-51. PMID:19604474<ref>PMID:19604474</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 3gz8" style="background-color:#fffaf0;"></div>
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==About this Structure==
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==See Also==
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3GZ8 is a 4 chains structure of sequences from [http://en.wikipedia.org/wiki/Shewanella_oneidensis Shewanella oneidensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3GZ8 OCA].
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*[[7%2C8-dihydro-8-oxoguanine triphosphatase 3D structures|7%2C8-dihydro-8-oxoguanine triphosphatase 3D structures]]
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== References ==
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Large Structures]]
[[Category: Shewanella oneidensis]]
[[Category: Shewanella oneidensis]]
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[[Category: Huang, N.]]
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[[Category: Huang N]]
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[[Category: Zhang, H.]]
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[[Category: Zhang H]]
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[[Category: Dna binding protein]]
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[[Category: Nudix domain]]
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[[Category: Whth domain]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jun 10 18:08:01 2009''
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Current revision

Cocrystal structure of NUDIX domain of Shewanella oneidensis NrtR complexed with ADP ribose

PDB ID 3gz8

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