2r8b

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (04:17, 2 July 2021) (edit) (undo)
 
(7 intermediate revisions not shown.)
Line 1: Line 1:
-
{{Seed}}
 
-
[[Image:2r8b.png|left|200px]]
 
-
<!--
+
==The crystal structure of the protein Atu2452 of unknown function from Agrobacterium tumefaciens str. C58==
-
The line below this paragraph, containing "STRUCTURE_2r8b", creates the "Structure Box" on the page.
+
<StructureSection load='2r8b' size='340' side='right'caption='[[2r8b]], [[Resolution|resolution]] 2.56&Aring;' scene=''>
-
You may change the PDB parameter (which sets the PDB file loaded into the applet)
+
== Structural highlights ==
-
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+
<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>
-
or leave the SCENE parameter empty for the default display.
+
</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='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-
{{STRUCTURE_2r8b| PDB=2r8b | SCENE= }}
+
<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>
 +
<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>
 +
</table>
 +
== 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/r8/2r8b_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=2r8b ConSurf].
 +
<div style="clear:both"></div>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
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.
-
===The crystal structure of the protein Atu2452 of unknown function from Agrobacterium tumefaciens str. C58===
+
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>
-
 
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
==About this Structure==
+
</div>
-
2R8B is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Agrobacterium_tumefaciens_str._c58 Agrobacterium tumefaciens str. c58]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2R8B OCA].
+
<div class="pdbe-citations 2r8b" style="background-color:#fffaf0;"></div>
-
[[Category: Agrobacterium tumefaciens str. c58]]
+
== References ==
-
[[Category: Single protein]]
+
<references/>
-
[[Category: Pdbx_ordinal=, <PDBx:audit_author.]]
+
__TOC__
 +
</StructureSection>
 +
[[Category: Agrfc]]
 +
[[Category: Large Structures]]
 +
[[Category: Edwards, A M]]
 +
[[Category: Joachimiak, A]]
 +
[[Category: Structural genomic]]
 +
[[Category: Savchenko, A]]
 +
[[Category: Tan, K]]
 +
[[Category: Xu, X]]
 +
[[Category: Zheng, H]]
[[Category: Agrobacterium tumefaciens str. c58]]
[[Category: Agrobacterium tumefaciens str. c58]]
[[Category: Apc6088]]
[[Category: Apc6088]]
[[Category: Mcsg]]
[[Category: Mcsg]]
-
[[Category: Midwest center for structural genomic]]
 
[[Category: Protein atu2452]]
[[Category: Protein atu2452]]
-
[[Category: Protein structure initiative]]
+
[[Category: PSI, Protein structure initiative]]
-
[[Category: Psi-2]]
+
-
[[Category: Structural genomic]]
+
[[Category: Unknown function]]
[[Category: Unknown function]]
- 
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Mar 18 20:28:09 2009''
 

Current revision

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

PDB ID 2r8b

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Personal tools