1gso: Difference between revisions

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-[[Image:1gso.gif|left|200px]]
- {{Structure
+==GLYCINAMIDE RIBONUCLEOTIDE SYNTHETASE (GAR-SYN) FROM E. COLI.==
-|PDB= 1gso |SIZE=350|CAPTION= <scene name='initialview01'>1gso</scene>, resolution 1.6&Aring;
+<StructureSection load='1gso' size='340' side='right'caption='[[1gso]], [[Resolution|resolution]] 1.60&Aring;' scene=''>
-|SITE=
+== Structural highlights ==
-|LIGAND=
+<table><tr><td colspan='2'>[[1gso]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1GSO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1GSO FirstGlance]. <br>
-|ACTIVITY= <span class='plainlinks'>[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] </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]] 1.6&#8491;</td></tr>
-|GENE=
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1gso FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gso OCA], [https://pdbe.org/1gso PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1gso RCSB], [https://www.ebi.ac.uk/pdbsum/1gso PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1gso ProSAT]</span></td></tr>
-|DOMAIN=
+</table>
-|RELATEDENTRY=
+== Function ==
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1gso FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1gso OCA], [http://www.ebi.ac.uk/pdbsum/1gso PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1gso RCSB]</span>
+[https://www.uniprot.org/uniprot/PUR2_ECOLI PUR2_ECOLI]
-}}
+== Evolutionary Conservation ==
+[[Image:Consurf_key_small.gif|200px|right]]
-'''GLYCINAMIDE RIBONUCLEOTIDE SYNTHETASE (GAR-SYN) FROM E. COLI.'''
+Check<jmol>
+  <jmolCheckbox>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/gs/1gso_consurf.spt"</scriptWhenChecked>
-==Overview==
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
-Glycinamide ribonucleotide synthetase (GAR-syn) catalyzes the second step of the de novo purine biosynthetic pathway; the conversion of phosphoribosylamine, glycine, and ATP to glycinamide ribonucleotide (GAR), ADP, and Pi. GAR-syn containing an N-terminal polyhistidine tag was expressed as the SeMet incorporated protein for crystallographic studies. In addition, the protein as isolated contains a Pro294Leu mutation. This protein was crystallized, and the structure solved using multiple-wavelength anomalous diffraction (MAD) phase determination and refined to 1.6 A resolution. GAR-syn adopts an alpha/beta structure that consists of four domains labeled N, A, B, and C. The N, A, and C domains are clustered to form a large central core structure whereas the smaller B domain is extended outward. Two hinge regions, which might readily facilitate interdomain movement, connect the B domain and the main core. A search of structural databases showed that the structure of GAR-syn is similar to D-alanine:D-alanine ligase, biotin carboxylase, and glutathione synthetase, despite low sequence similarity. These four enzymes all utilize similar ATP-dependent catalytic mechanisms even though they catalyze different chemical reactions. Another ATP-binding enzyme with low sequence similarity but unknown function, synapsin Ia, was also found to share high structural similarity with GAR-syn. Interestingly, the GAR-syn N domain shows similarity to the N-terminal region of glycinamide ribonucleotide transformylase and several dinucleotide-dependent dehydrogenases. Models of ADP and GAR binding were generated based on structure and sequence homology. On the basis of these models, the active site lies in a cleft between the large domain and the extended B domain. Most of the residues that facilitate ATP binding belong to the A or B domains. The N and C domains appear to be largely responsible for substrate specificity. The structure of GAR-syn allows modeling studies of possible channeling complexes with PPRP amidotransferase.
+    <text>to colour the structure by Evolutionary Conservation</text>
+  </jmolCheckbox>
-==About this Structure==
+</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=1gso ConSurf].
-GSO is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1GSO OCA].
+<div style="clear:both"></div>
+__TOC__
-==Reference==
+</StructureSection>
-X-ray crystal structure of glycinamide ribonucleotide synthetase from Escherichia coli., Wang W, Kappock TJ, Stubbe J, Ealick SE, Biochemistry. 1998 Nov 10;37(45):15647-62. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/9843369 9843369]
 [[Category: Escherichia coli]]
-[[Category: Phosphoribosylamine--glycine ligase]]
+[[Category: Large Structures]]
-[[Category: Single protein]]
+[[Category: Ealick SE]]
-[[Category: Ealick, S E.]]
+[[Category: Kappock TJ]]
-[[Category: Kappock, T J.]]
+[[Category: Stubbe J]]
-[[Category: Stubbe, J.]]
+[[Category: Wang W]]
-[[Category: Wang, W.]]
-[[Category: atp-grasp]]
-[[Category: gar-syn]]
-[[Category: glycinamide ribonucleotide synthetase]]
-[[Category: purine de novo biosynthetic pathway]]
-[[Category: substrate channeling]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 20:50:31 2008''