1clb: Difference between revisions

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-{{Seed}}
-[[Image:1clb.png|left|200px]]
-<!--
+==Determination of the solution structure of apo calbindin D9K by nmr spectroscopy==
-The line below this paragraph, containing "STRUCTURE_1clb", creates the "Structure Box" on the page.
+<StructureSection load='1clb' size='340' side='right'caption='[[1clb]]' 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'>[[1clb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CLB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1CLB 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">Solution NMR</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=1clb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1clb OCA], [https://pdbe.org/1clb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1clb RCSB], [https://www.ebi.ac.uk/pdbsum/1clb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1clb ProSAT]</span></td></tr>
-{{STRUCTURE_1clb|  PDB=1clb  |  SCENE=  }}
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/S100G_BOVIN S100G_BOVIN]
+== 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/cl/1clb_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=1clb ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The three-dimensional structure of apo calbindin D9k has been determined using constraints generated from nuclear magnetic resonance spectroscopy. The family of solution structures was calculated using a combination of distance geometry, restrained molecular dynamics, and hybrid relaxation matrix analysis of the nuclear Overhauser effect (NOE) cross-peak intensities. Errors and inconsistencies in the input constraints were identified using complete relaxation matrix analyses based on the results of preliminary structure calculations. The final input data consisted of 994 NOE distance constraints and 122 dihedral constraints, aided by the stereospecific assignment of the resonances from 21 beta-methylene groups and seven isopropyl groups of leucine and valine residues. The resulting family of 33 structures contain no violation of the distance constraints greater than 0.17 A or of the dihedral angle constraints greater than 10 degrees. The structures consist of a well-defined, antiparallel four-helix bundle, with a short anti-parallel beta-interaction between the two unoccupied calcium-binding loops. The root-mean-square deviation from the mean structure of the backbone heavy-atoms for the well-defined helical residues is 0.55 A. The remainder of the ion-binding loops, the linker loop connecting the two sub-domains of the protein, and the N and C termini exhibit considerable disorder between different structures in the ensemble. A comparison with the structure of the (Ca2+)2 state indicates that the largest changes associated with ion-binding occur in the middle of helix IV and in the packing of helix III onto the remainder of the protein. The change in conformation of these helices is associated with a subtle reorganization of many residues in the hydrophobic core, including some side-chains that are up to 15 A from the ion-binding site.
-===DETERMINATION OF THE SOLUTION STRUCTURE OF APO CALBINDIN D9K BY NMR SPECTROSCOPY===
+Determination of the solution structure of Apo calbindin D9k by NMR spectroscopy.,Skelton NJ, Kordel J, Chazin WJ J Mol Biol. 1995 Jun 2;249(2):441-62. PMID:7783203<ref>PMID:7783203</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1clb" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_7783203}}, adds the Publication Abstract to the page
+*[[S100 proteins 3D structures|S100 proteins 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 7783203 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_7783203}}
+__TOC__
+</StructureSection>
-==About this Structure==
-CLB is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Bos_taurus Bos taurus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CLB OCA].
-==Reference==
-<ref group="xtra">PMID:7783203</ref><references group="xtra"/>
 [[Category: Bos taurus]]
-[[Category: Chazin, W J.]]
+[[Category: Large Structures]]
-[[Category: Skelton, N J.]]
+[[Category: Chazin WJ]]
-[[Category: Ef-hand]]
+[[Category: Skelton NJ]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 03:54:41 2009''