3ebx: Difference between revisions

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-{{Seed}}
-[[Image:3ebx.png|left|200px]]
-<!--
+==REFINEMENT AT 1.4 ANGSTROMS RESOLUTION OF A MODEL OF ERABUTOXIN B. TREATMENT OF ORDERED SOLVENT AND DISCRETE DISORDER==
-The line below this paragraph, containing "STRUCTURE_3ebx", creates the "Structure Box" on the page.
+<StructureSection load='3ebx' size='340' side='right'caption='[[3ebx]], [[Resolution|resolution]] 1.40&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'>[[3ebx]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Black-banded_sea_krait Black-banded sea krait]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2ebx 2ebx]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EBX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3EBX 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='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[5ebx|5ebx]]</div></td></tr>
-{{STRUCTURE_3ebx|  PDB=3ebx  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3ebx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ebx OCA], [https://pdbe.org/3ebx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ebx RCSB], [https://www.ebi.ac.uk/pdbsum/3ebx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ebx ProSAT]</span></td></tr>
+</table>
+== Function ==
+[[https://www.uniprot.org/uniprot/NXSB_PSSEM NXSB_PSSEM]] Binds with high affinity to muscular nicotinic acetylcholine receptors (nAChRs), and with low affinity to neuronal alpha-7 nAChRs and inhibit acetylcholine from binding to the receptor, thereby impairing neuromuscular transmission. Produces peripheral paralysis by blocking neuromuscular transmission at the postsynaptic site.<ref>PMID:9305882</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/eb/3ebx_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=3ebx ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The latter stages in the refinement of the protein erabutoxin b are described. The crystal structure of the 62-residue protein has been refined to a conventional R factor of 0.144 by stereochemically restrained least-squares methods using diffraction data to a limit of 1.4 A spacings. Emphasis was placed on determining as accurately as possible the solvent structure and the structures of heterogeneous groups in the protein. The final model includes two conformers for each of seven side chains and for an octapeptide segment. A total of 111 sites for water molecules have been located as well as one sulfate ion with a total of 68 site occupancies. 65 of the solvent sites overlap either with protein atoms belonging to groups in two alternative conformations or with other solvent sites. Dual protein conformers and overlapping solvent sites were both included in the least-squares refinement. Individual thermal and occupancy parameters were refined for solvent molecules. An analysis of these parameters has provided useful structural information.
-===REFINEMENT AT 1.4 ANGSTROMS RESOLUTION OF A MODEL OF ERABUTOXIN B. TREATMENT OF ORDERED SOLVENT AND DISCRETE DISORDER===
+Refinement at 1.4 A resolution of a model of erabutoxin b: treatment of ordered solvent and discrete disorder.,Smith JL, Corfield PW, Hendrickson WA, Low BW Acta Crystallogr A. 1988 May 1;44 ( Pt 3):357-68. PMID:3272151<ref>PMID:3272151</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_3272151}}, adds the Publication Abstract to the page
+<div class="pdbe-citations 3ebx" style="background-color:#fffaf0;"></div>
-(as it appears on PubMed at http://www.pubmed.gov), where 3272151 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_3272151}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Black-banded sea krait]]
-EBX is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Laticauda_semifasciata Laticauda semifasciata]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=2ebx 2ebx]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EBX OCA].
+[[Category: Large Structures]]
+[[Category: Corfield, P W.R]]
-==Reference==
+[[Category: Hendrickson, W A]]
-Refinement at 1.4 A resolution of a model of erabutoxin b: treatment of ordered solvent and discrete disorder., Smith JL, Corfield PW, Hendrickson WA, Low BW, Acta Crystallogr A. 1988 May 1;44 ( Pt 3):357-68. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/3272151 3272151]
+[[Category: Low, B W]]
-[[Category: Laticauda semifasciata]]
+[[Category: Smith, J L]]
-[[Category: Single protein]]
-[[Category: Corfield, P W.R.]]
-[[Category: Hendrickson, W A.]]
-[[Category: Low, B W.]]
-[[Category: Smith, J L.]]
 [[Category: Toxin]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 07:30:57 2008''