2v9y

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (15:11, 13 December 2023) (edit) (undo)
 
(17 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:2v9y.jpg|left|200px]]<br /><applet load="2v9y" size="350" color="white" frame="true" align="right" spinBox="true"
 
-
caption="2v9y, resolution 2.10&Aring;" />
 
-
'''HUMAN AMINOIMIDAZOLE RIBONUCLEOTIDE SYNTHETASE'''<br />
 
-
==Overview==
+
==Human aminoimidazole ribonucleotide synthetase==
-
We tested the general applicability of in situ proteolysis to form protein, crystals suitable for structure determination by adding a protease, (chymotrypsin or trypsin) digestion step to crystallization trials of 55, bacterial and 14 human proteins that had proven recalcitrant to our best, efforts at crystallization or structure determination. This is a work in, progress; so far we determined structures of 9 bacterial proteins and the, human aminoimidazole ribonucleotide synthetase (AIRS) domain.
+
<StructureSection load='2v9y' size='340' side='right'caption='[[2v9y]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[2v9y]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2V9Y OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2V9Y FirstGlance]. <br>
 +
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.1&#8491;</td></tr>
 +
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><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=2v9y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2v9y OCA], [https://pdbe.org/2v9y PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2v9y RCSB], [https://www.ebi.ac.uk/pdbsum/2v9y PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2v9y ProSAT]</span></td></tr>
 +
</table>
 +
== Function ==
 +
[https://www.uniprot.org/uniprot/PUR2_HUMAN PUR2_HUMAN]
 +
== 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/v9/2v9y_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=2v9y ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Human purine de novo synthesis pathway contains several multi-functional enzymes, one of which, tri-functional GART, contains three enzymatic activities in a single polypeptide chain. We have solved structures of two domains bearing separate catalytic functions: glycinamide ribonucleotide synthetase and aminoimidazole ribonucleotide synthetase. Structures are compared with those of homologous enzymes from prokaryotes and analyzed in terms of the catalytic mechanism. We also report small angle X-ray scattering models for the full-length protein. These models are consistent with the enzyme forming a dimer through the middle domain. The protein has an approximate seesaw geometry where terminal enzyme units display high mobility owing to flexible linker segments. This resilient seesaw shape may facilitate internal substrate/product transfer or forwarding to other enzymes in the pathway.
-
==About this Structure==
+
Structural studies of tri-functional human GART.,Welin M, Grossmann JG, Flodin S, Nyman T, Stenmark P, Tresaugues L, Kotenyova T, Johansson I, Nordlund P, Lehtio L Nucleic Acids Res. 2010 Nov 1;38(20):7308-19. Epub 2010 Jul 14. PMID:20631005<ref>PMID:20631005</ref>
-
2V9Y is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] with <scene name='pdbligand=SO4:'>SO4</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Active as [http://en.wikipedia.org/wiki/Phosphoribosylformylglycinamidine_cyclo-ligase Phosphoribosylformylglycinamidine cyclo-ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.3.1 6.3.3.1] Known structural/functional Sites: <scene name='pdbsite=AC1:So4 Binding Site For Chain A'>AC1</scene>, <scene name='pdbsite=AC2:So4 Binding Site For Chain B'>AC2</scene> and <scene name='pdbsite=AC3:So4 Binding Site For Chain B'>AC3</scene>. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2V9Y OCA].
+
-
==Reference==
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
In situ proteolysis for protein crystallization and structure determination., Dong A, Xu X, Edwards AM, Chang C, Chruszcz M, Cuff M, Cymborowski M, Leo RD, Egorova O, Evdokimova E, Filippova E, Gu J, Guthrie J, Ignatchenko A, Joachimiak A, Klostermann N, Kim Y, Korniyenko Y, Minor W, Que Q, Savchenko A, Skarina T, Tan K, Yakunin A, Yee A, Yim V, Zhang R, Zheng H, Akutsu M, Arrowsmith C, Avvakumov GV, Bochkarev A, Dahlgren LG, Dhe-Paganon S, Dimov S, Dombrovski L, Finerty P Jr, Flodin S, Flores A, Graslund S, Hammerstrom M, Herman MD, Hong BS, Hui R, Johansson I, Liu Y, Nilsson M, Nedyalkova L, Nordlund P, Nyman T, Min J, Ouyang H, Park HW, Qi C, Rabeh W, Shen L, Shen Y, Sukumard D, Tempel W, Tong Y, Tresagues L, Vedadi M, Walker JR, Weigelt J, Welin M, Wu H, Xiao T, Zeng H, Zhu H, Nat Methods. 2007 Nov 4;. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=17982461 17982461]
+
</div>
 +
<div class="pdbe-citations 2v9y" style="background-color:#fffaf0;"></div>
 +
== References ==
 +
<references/>
 +
__TOC__
 +
</StructureSection>
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
-
[[Category: Phosphoribosylformylglycinamidine cyclo-ligase]]
+
[[Category: Large Structures]]
-
[[Category: Single protein]]
+
[[Category: Arrowsmith CH]]
-
[[Category: Arrowsmith, C.H.]]
+
[[Category: Berglund H]]
-
[[Category: Berg, S.Van.Den.]]
+
[[Category: Busam R]]
-
[[Category: Berglund, H.]]
+
[[Category: Collins R]]
-
[[Category: Busam, R.]]
+
[[Category: Dahlgren LG]]
-
[[Category: Collins, R.]]
+
[[Category: Edwards AM]]
-
[[Category: Consortium, Structural.Genomics.]]
+
[[Category: Flodin S]]
-
[[Category: Dahlgren, L.G.]]
+
[[Category: Flores A]]
-
[[Category: Edwards, A.]]
+
[[Category: Graslund S]]
-
[[Category: Flodin, S.]]
+
[[Category: Hallberg BM]]
-
[[Category: Flores, A.]]
+
[[Category: Hammarstrom M]]
-
[[Category: Graslund, S.]]
+
[[Category: Herman MD]]
-
[[Category: Hallberg, B.M.]]
+
[[Category: Holmberg-Schiavone L]]
-
[[Category: Hammarstrom, M.]]
+
[[Category: Johansson I]]
-
[[Category: Herman, M.D.]]
+
[[Category: Kallas A]]
-
[[Category: Holmberg-Schiavone, L.]]
+
[[Category: Karlberg T]]
-
[[Category: Johansson, I.]]
+
[[Category: Kotenyova T]]
-
[[Category: Kallas, A.]]
+
[[Category: Lehtio L]]
-
[[Category: Karlberg, T.]]
+
[[Category: Moche M]]
-
[[Category: Kotenyova, T.]]
+
[[Category: Nordlund P]]
-
[[Category: Lehtio, L.]]
+
[[Category: Nyman T]]
-
[[Category: Moche, M.]]
+
[[Category: Persson C]]
-
[[Category: Nordlund, P.]]
+
[[Category: Sagemark J]]
-
[[Category: Nyman, T.]]
+
[[Category: Stenmark P]]
-
[[Category: Persson, C.]]
+
[[Category: Sundstrom M]]
-
[[Category: Sagemark, J.]]
+
[[Category: Thorsell AG]]
-
[[Category: Stenmark, P.]]
+
[[Category: Tresaugues L]]
-
[[Category: Sundstrom, M.]]
+
[[Category: Weigelt J]]
-
[[Category: Thorsell, A.G.]]
+
[[Category: Welin M]]
-
[[Category: Tresaugues, L.]]
+
[[Category: Van den Berg S]]
-
[[Category: Weigelt, J.]]
+
-
[[Category: Welin, M.]]
+
-
[[Category: SO4]]
+
-
[[Category: airs]]
+
-
[[Category: alternative splicing]]
+
-
[[Category: aminoimidazole ribonucleotide synthetase]]
+
-
[[Category: atp-binding]]
+
-
[[Category: gart]]
+
-
[[Category: ligase]]
+
-
[[Category: multifunctional enzyme]]
+
-
[[Category: nucleotide-binding]]
+
-
[[Category: phosphorylation]]
+
-
[[Category: polymorphism]]
+
-
[[Category: purine biosynthesis]]
+
-
[[Category: purine metabolism]]
+
-
[[Category: sgc]]
+
-
[[Category: structural genomics]]
+
-
[[Category: structural genomics consortium]]
+
-
[[Category: transferase]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 23 12:07:32 2008''
+

Current revision

Human aminoimidazole ribonucleotide synthetase

PDB ID 2v9y

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2v9y"
Personal tools