1dwu: 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:1dwu.png|left|200px]]
-<!--
+==Ribosomal protein L1==
-The line below this paragraph, containing "STRUCTURE_1dwu", creates the "Structure Box" on the page.
+<StructureSection load='1dwu' size='340' side='right'caption='[[1dwu]], [[Resolution|resolution]] 2.80&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'>[[1dwu]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanothermococcus_thermolithotrophicus Methanothermococcus thermolithotrophicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DWU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DWU 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]] 2.8&#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=1dwu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dwu OCA], [https://pdbe.org/1dwu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1dwu RCSB], [https://www.ebi.ac.uk/pdbsum/1dwu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1dwu ProSAT]</span></td></tr>
-{{STRUCTURE_1dwu|  PDB=1dwu  |  SCENE=  }}
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/RL1_METTL RL1_METTL] Probably involved in E site tRNA release (By similarity). Binds directly to 23S rRNA.  Protein L1 is also a translational repressor protein, it controls the translation of its operon by binding to its mRNA (By similarity).
+== 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/dw/1dwu_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=1dwu ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The crystal structure of ribosomal protein L1 from the archaeon Methanococcus thermolithotrophicus has been determined at 2.7 A resolution. The crystals belong to space group P2(1)2(1)2(1), with unit-cell parameters a = 67.0, b = 70.1, c = 106.3 A and two molecules per asymmetric unit. The structure was solved by the molecular-replacement method with AMoRe and refined with CNS to an R value of 18.9% and an R(free) of 25.4% in the resolution range 30-2.7 A. Comparison of this structure with those obtained previously for two L1 proteins from other sources (the bacterium Thermus thermophilus and the archaeon M. jannaschii) as well as detailed analysis of intermolecular contacts in the corresponding L1 crystals reveal structural invariants on the molecular surface which are probably important for binding the 23S ribosomal RNA and protein function within the ribosome.
-===RIBOSOMAL PROTEIN L1===
+Structure of ribosomal protein L1 from Methanococcus thermolithotrophicus. Functionally important structural invariants on the L1 surface.,Nevskaya N, Tishchenko S, Paveliev M, Smolinskaya Y, Fedorov R, Piendl W, Nakamura Y, Toyoda T, Garber M, Nikonov S Acta Crystallogr D Biol Crystallogr. 2002 Jun;58(Pt 6 Pt 2):1023-9. Epub, 2002 May 29. PMID:12037305<ref>PMID:12037305</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1dwu" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_12037305}}, adds the Publication Abstract to the page
+*[[Ribosomal protein L1|Ribosomal protein L1]]
-(as it appears on PubMed at http://www.pubmed.gov), where 12037305 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_12037305}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-DWU is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Methanothermococcus_thermolithotrophicus Methanothermococcus thermolithotrophicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DWU OCA].
-==Reference==
-<ref group="xtra">PMID:12037305</ref><references group="xtra"/>
 [[Category: Methanothermococcus thermolithotrophicus]]
-[[Category: Garber, M B.]]
+[[Category: Garber MB]]
-[[Category: Nevskaya, N A.]]
+[[Category: Nevskaya NA]]
-[[Category: Nikonov, S V.]]
+[[Category: Nikonov SV]]
-[[Category: Pavelyev, M N.]]
+[[Category: Pavelyev MN]]
-[[Category: Piendl, W.]]
+[[Category: Piendl W]]
-[[Category: Tishchenko, S V.]]
+[[Category: Tishchenko SV]]
-[[Category: Protein synthesis]]
-[[Category: Ribosomal protein]]
-[[Category: Rna binding]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 05:00:42 2009''