1v3r: Difference between revisions

← Older edit

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 1: / Line 1: @@
-{{Seed}}
-[[Image:1v3r.png|left|200px]]
-<!--
+==Crystal structure of TT1020 from Thermus thermophilus HB8==
-The line below this paragraph, containing "STRUCTURE_1v3r", creates the "Structure Box" on the page.
+<StructureSection load='1v3r' size='340' side='right'caption='[[1v3r]], [[Resolution|resolution]] 1.85&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'>[[1v3r]] is a 3 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=1V3R OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1V3R FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.85&#8491;</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=1v3r FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1v3r OCA], [https://pdbe.org/1v3r PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1v3r RCSB], [https://www.ebi.ac.uk/pdbsum/1v3r PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1v3r ProSAT], [https://www.topsan.org/Proteins/RSGI/1v3r TOPSAN]</span></td></tr>
-{{STRUCTURE_1v3r|  PDB=1v3r  |  SCENE=  }}
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/P83820_THETH P83820_THETH]
+== 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/v3/1v3r_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=1v3r ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The Thermus thermophilus HB8 genome encodes a signal transducing PII protein, GlnK. The crystal structures of GlnK have been determined in two different space groups, P2(1)2(1)2(1) and P3(1)21. The PII protein has the T-loop, which is essential for interactions with receptor proteins. In both crystal forms, three GlnK molecules form a trimer in the asymmetric unit. In one P2(1)2(1)2(1) crystal form, the three T-loops in the trimer are disordered, while in another P2(1)2(1)2(1) crystal form, the T-loop from one molecule in the trimer is ordered. In the P3(1)21 crystal, one T-loop is ordered while the other two T-loops are disordered. The conformations of the ordered T-loops significantly differ between the two crystal forms; one makes the alpha-helix in the middle of the T-loop, while the other has an extension of the beta-hairpin. Two different conformations are captured by the crystal contacts. The observation of multiple T-loop conformations suggests that the T-loop could potentially exhibit "polysterism," which would be important for interactions with receptor proteins. The crystal structures of the nucleotide-bound forms, GlnK.ATP and GlnK.ADP, have also been determined. ATP/ADP binding within a cleft at the interface of two adjacent T. thermophilus GlnK monomers might affect the conformation of the T-loop.
-===Crystal structure of TT1020 from Thermus thermophilus HB8===
+Crystal structures of the signal transducing protein GlnK from Thermus thermophilus HB8.,Sakai H, Wang H, Takemoto-Hori C, Kaminishi T, Yamaguchi H, Kamewari Y, Terada T, Kuramitsu S, Shirouzu M, Yokoyama S J Struct Biol. 2005 Jan;149(1):99-110. PMID:15629661<ref>PMID:15629661</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-<!--
+</div>
-The line below this paragraph, {{ABSTRACT_PUBMED_15629661}}, adds the Publication Abstract to the page
+<div class="pdbe-citations 1v3r" style="background-color:#fffaf0;"></div>
-(as it appears on PubMed at http://www.pubmed.gov), where 15629661 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_15629661}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-V3R is a 3 chains structure of sequences 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=1V3R OCA].
+[[Category: Thermus thermophilus HB8]]
+[[Category: Kaminishi T]]
-==Reference==
+[[Category: Kuramitsu S]]
-Crystal structures of the signal transducing protein GlnK from Thermus thermophilus HB8., Sakai H, Wang H, Takemoto-Hori C, Kaminishi T, Yamaguchi H, Kamewari Y, Terada T, Kuramitsu S, Shirouzu M, Yokoyama S, J Struct Biol. 2005 Jan;149(1):99-110. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15629661 15629661]
+[[Category: Sakai H]]
-[[Category: Thermus thermophilus]]
+[[Category: Shirouzu M]]
-[[Category: Kaminishi, T.]]
+[[Category: Takemoto-Hori C]]
-[[Category: Kuramitsu, S.]]
+[[Category: Terada T]]
-[[Category: RSGI, RIKEN Structural Genomics/Proteomics Initiative.]]
+[[Category: Wang H]]
-[[Category: Sakai, H.]]
+[[Category: Yamaguchi H]]
-[[Category: Shirouzu, M.]]
+[[Category: Yokoyama S]]
-[[Category: Takemoto-Hori, C.]]
-[[Category: Terada, T.]]
-[[Category: Wang, H.]]
-[[Category: Yamaguchi, H.]]
-[[Category: Yokoyama, S.]]
-[[Category: National project on protein structural and functional analyse]]
-[[Category: Nppsfa]]
-[[Category: Riken structural genomics/proteomics initiative]]
-[[Category: Rsgi]]
-[[Category: Signal transducing protein]]
-[[Category: Structural genomic]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Nov 16 17:37:13 2008''