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[[Image:2ip4.gif|left|200px]]


{{Structure
==Crystal Structure of Glycinamide Ribonucleotide Synthetase from Thermus thermophilus HB8==
|PDB= 2ip4 |SIZE=350|CAPTION= <scene name='initialview01'>2ip4</scene>, resolution 2.8&Aring;
<StructureSection load='2ip4' size='340' side='right'caption='[[2ip4]], [[Resolution|resolution]] 2.80&Aring;' scene=''>
|SITE=  
== Structural highlights ==
|LIGAND= <scene name='pdbligand=SO4:SULFATE ION'>SO4</scene>
<table><tr><td colspan='2'>[[2ip4]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus_HB8 Thermus thermophilus HB8]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IP4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2IP4 FirstGlance]. <br>
|ACTIVITY= [http://en.wikipedia.org/wiki/Phosphoribosylamine--glycine_ligase Phosphoribosylamine--glycine ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.4.13 6.3.4.13]  
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.8&#8491;</td></tr>
|GENE= TTHA0811 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=274 Thermus thermophilus])
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=2ip4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ip4 OCA], [https://pdbe.org/2ip4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ip4 RCSB], [https://www.ebi.ac.uk/pdbsum/2ip4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ip4 ProSAT], [https://www.topsan.org/Proteins/RSGI/2ip4 TOPSAN]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/Q5SK40_THET8 Q5SK40_THET8]
== 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/ip/2ip4_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=2ip4 ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Glycinamide ribonucleotide synthetase (GAR-syn, PurD) catalyses the second reaction of the purine biosynthetic pathway; the conversion of phosphoribosylamine, glycine and ATP to glycinamide ribonucleotide (GAR), ADP and Pi. In the present study, crystal structures of GAR-syn's from Thermus thermophilus, Geobacillus kaustophilus and Aquifex aeolicus were determined in apo forms. Crystal structures in ligand-bound forms were also determined for G. kaustophilus and A. aeolicus proteins. In general, overall structures of GAR-syn's are similar to each other. However, the orientations of the B domains are varied among GAR-syn's and the MD simulation suggested the mobility of the B domain. Furthermore, it was demonstrated that the B loop in the B domain fixes the position of the beta- and gamma- phosphate groups of the bound ATP. The structures of GAR-syn's and the bound ligands were compared with each other in detail, and structures of GAR-syn's with full ligands, as well as the possible reaction mechanism, were proposed.


'''Crystal Structure of Glycinamide Ribonucleotide Synthetase from Thermus thermophilus HB8'''
Crystal structures of glycinamide ribonucleotide synthetase, PurD, from thermophilic eubacteria.,Sampei G, Baba S, Kanagawa M, Yanai H, Ishii T, Kawai H, Fukai Y, Ebihara A, Nakagawa N, Kawai G J Biochem. 2010 Oct;148(4):429-38. Epub 2010 Aug 16. PMID:20716513<ref>PMID:20716513</ref>


 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
==About this Structure==
</div>
2IP4 is a [[Single protein]] 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=2IP4 OCA].
<div class="pdbe-citations 2ip4" style="background-color:#fffaf0;"></div>
[[Category: Phosphoribosylamine--glycine ligase]]
== References ==
[[Category: Single protein]]
<references/>
[[Category: Thermus thermophilus]]
__TOC__
[[Category: Baba, S.]]
</StructureSection>
[[Category: Ebihara, A.]]
[[Category: Large Structures]]
[[Category: Fukai, Y.]]
[[Category: Thermus thermophilus HB8]]
[[Category: Ishii, T.]]
[[Category: Baba S]]
[[Category: Kanagawa, M.]]
[[Category: Ebihara A]]
[[Category: Kawai, G.]]
[[Category: Fukai Y]]
[[Category: Kawai, H.]]
[[Category: Ishii T]]
[[Category: Nakagawa, N.]]
[[Category: Kanagawa M]]
[[Category: RSGI, RIKEN Structural Genomics/Proteomics Initiative.]]
[[Category: Kawai G]]
[[Category: Sampei, G.]]
[[Category: Kawai H]]
[[Category: Yanai, H.]]
[[Category: Nakagawa N]]
[[Category: SO4]]
[[Category: Sampei G]]
[[Category: gar synthetase]]
[[Category: Yanai H]]
[[Category: ligase]]
[[Category: national project on protein structural and functional analyse]]
[[Category: nppsfa]]
[[Category: purd]]
[[Category: purine nucleotide]]
[[Category: riken structural genomics/proteomics initiative]]
[[Category: rsgi]]
[[Category: structural genomic]]
[[Category: thermus thermophilus]]
 
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Retrieved from "https://proteopedia.org/2ip4"