1ryq: Difference between revisions

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-{{Seed}}
-[[Image:1ryq.png|left|200px]]
-<!--
+==Putative DNA-directed RNA polymerase, subunit e'' from Pyrococcus Furiosus Pfu-263306-001==
-The line below this paragraph, containing "STRUCTURE_1ryq", creates the "Structure Box" on the page.
+<StructureSection load='1ryq' size='340' side='right'caption='[[1ryq]], [[Resolution|resolution]] 1.38&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'>[[1ryq]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_furiosus Pyrococcus furiosus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1RYQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1RYQ 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]] 1.38&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-{{STRUCTURE_1ryq|  PDB=1ryq  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1ryq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ryq OCA], [https://pdbe.org/1ryq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ryq RCSB], [https://www.ebi.ac.uk/pdbsum/1ryq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ryq ProSAT], [https://www.topsan.org/Proteins/SECSG/1ryq TOPSAN]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/SPT4_PYRFU SPT4_PYRFU] Stimulates transcription elongation.<ref>PMID:21386817</ref> <ref>PMID:21187417</ref>
+== 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/ry/1ryq_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=1ryq ConSurf].
+<div style="clear:both"></div>
-===Putative DNA-directed RNA polymerase, subunit e'' from Pyrococcus Furiosus Pfu-263306-001===
+==See Also==
+*[[RNA polymerase 3D structures|RNA polymerase 3D structures]]
+== References ==
-<!--
+<references/>
-The line below this paragraph, {{ABSTRACT_PUBMED_15858261}}, adds the Publication Abstract to the page
+__TOC__
-(as it appears on PubMed at http://www.pubmed.gov), where 15858261 is the PubMed ID number.
+</StructureSection>
--->
+[[Category: Large Structures]]
-{{ABSTRACT_PUBMED_15858261}}
-==About this Structure==
-RYQ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Pyrococcus_furiosus Pyrococcus furiosus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1RYQ OCA].
-==Reference==
-Parameter-space screening: a powerful tool for high-throughput crystal structure determination., Liu ZJ, Lin D, Tempel W, Praissman JL, Rose JP, Wang BC, Acta Crystallogr D Biol Crystallogr. 2005 May;61(Pt 5):520-7. Epub 2005, Apr 20. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15858261 15858261]
-The high-throughput protein-to-structure pipeline at SECSG., Liu ZJ, Tempel W, Ng JD, Lin D, Shah AK, Chen L, Horanyi PS, Habel JE, Kataeva IA, Xu H, Yang H, Chang JC, Huang L, Chang SH, Zhou W, Lee D, Praissman JL, Zhang H, Newton MG, Rose JP, Richardson JS, Richardson DC, Wang BC, Acta Crystallogr D Biol Crystallogr. 2005 Jun;61(Pt 6):679-84. Epub 2005, May 26. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15930619 15930619]
 [[Category: Pyrococcus furiosus]]
-[[Category: Adams, M W.W.]]
+[[Category: Adams MWW]]
-[[Category: Brereton, P S.]]
+[[Category: Arendall III WB]]
-[[Category: Chen, L.]]
+[[Category: Brereton PS]]
-[[Category: II, F L.Poole.]]
+[[Category: Chen L]]
-[[Category: III, W B.Arendall.]]
+[[Category: Izumi M]]
-[[Category: Izumi, M.]]
+[[Category: Jenney Jr FE]]
-[[Category: Jr., F E.Jenney.]]
+[[Category: Lee HS]]
-[[Category: Lee, H S.]]
+[[Category: Liu Z-J]]
-[[Category: Liu, Z J.]]
+[[Category: Poole II FL]]
-[[Category: Richardson, D C.]]
+[[Category: Richardson DC]]
-[[Category: Richardson, J S.]]
+[[Category: Richardson JS]]
-[[Category: Rose, J P.]]
+[[Category: Rose JP]]
-[[Category: SECSG, Southeast Collaboratory for Structural Genomics.]]
+[[Category: Shah A]]
-[[Category: Shah, A.]]
+[[Category: Shah C]]
-[[Category: Shah, C.]]
+[[Category: Sugar FJ]]
-[[Category: Sugar, F J.]]
+[[Category: Tempel W]]
-[[Category: Tempel, W.]]
+[[Category: Wang B-C]]
-[[Category: Wang, B C.]]
-[[Category: Protein structure initiative]]
-[[Category: Psi]]
-[[Category: Rna polymerase]]
-[[Category: Secsg]]
-[[Category: Southeast collaboratory for structural genomic]]
-[[Category: Structural genomic]]
-[[Category: Zinc]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Nov 16 18:43:29 2008''