2r8b

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(New page: 200px<br /><applet load="2r8b" size="350" color="white" frame="true" align="right" spinBox="true" caption="2r8b, resolution 2.56&Aring;" /> '''The crystal structur...)
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[[Image:2r8b.jpg|left|200px]]<br /><applet load="2r8b" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="2r8b, resolution 2.56&Aring;" />
 
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'''The crystal structure of the protein Atu2452 of unknown function from Agrobacterium tumefaciens str. C58'''<br />
 
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==Overview==
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==The crystal structure of the protein Atu2452 of unknown function from Agrobacterium tumefaciens str. C58==
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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.
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<StructureSection load='2r8b' size='340' side='right'caption='[[2r8b]], [[Resolution|resolution]] 2.56&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[2r8b]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Agrfc Agrfc]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2R8B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2R8B FirstGlance]. <br>
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</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>
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<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">AGR_C_4453, Atu2452 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=176299 AGRFC])</td></tr>
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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=2r8b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2r8b OCA], [https://pdbe.org/2r8b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2r8b RCSB], [https://www.ebi.ac.uk/pdbsum/2r8b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2r8b ProSAT], [https://www.topsan.org/Proteins/MCSG/2r8b TOPSAN]</span></td></tr>
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</table>
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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/r8/2r8b_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=2r8b 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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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.
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==About this Structure==
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In situ proteolysis for protein crystallization and structure determination.,Dong A, Xu X, Edwards AM, Chang C, Chruszcz M, Cuff M, Cymborowski M, Di Leo R, 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 Dec;4(12):1019-21. Epub 2007 Nov 4. PMID:17982461<ref>PMID:17982461</ref>
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2R8B is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Agrobacterium_tumefaciens_str._c58 Agrobacterium tumefaciens str. c58] with <scene name='pdbligand=SO4:'>SO4</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2R8B OCA].
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==Reference==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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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]
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</div>
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<div class="pdbe-citations 2r8b" style="background-color:#fffaf0;"></div>
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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: Agrfc]]
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[[Category: Large Structures]]
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[[Category: Edwards, A M]]
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[[Category: Joachimiak, A]]
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[[Category: Structural genomic]]
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[[Category: Savchenko, A]]
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[[Category: Tan, K]]
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[[Category: Xu, X]]
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[[Category: Zheng, H]]
[[Category: Agrobacterium tumefaciens str. c58]]
[[Category: Agrobacterium tumefaciens str. c58]]
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[[Category: Single protein]]
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[[Category: Apc6088]]
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[[Category: Edwards, A.M.]]
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[[Category: Mcsg]]
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[[Category: Joachimiak, A.]]
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[[Category: Protein atu2452]]
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[[Category: MCSG, Midwest.Center.for.Structural.Genomics.]]
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[[Category: PSI, Protein structure initiative]]
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[[Category: Savchenko, A.]]
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[[Category: Unknown function]]
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[[Category: Tan, K.]]
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[[Category: Xu, X.]]
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[[Category: Zheng, H.]]
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[[Category: SO4]]
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[[Category: agrobacterium tumefaciens str. c58]]
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[[Category: apc6088]]
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[[Category: mcsg]]
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[[Category: midwest center for structural genomics]]
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[[Category: protein atu2452]]
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[[Category: protein structure initiative]]
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[[Category: psi-2]]
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[[Category: structural genomics]]
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[[Category: unknown function]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 23 12:07:02 2008''
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Current revision

The crystal structure of the protein Atu2452 of unknown function from Agrobacterium tumefaciens str. C58

PDB ID 2r8b

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