1ud5: Difference between revisions

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-{{Seed}}
-[[Image:1ud5.png|left|200px]]
-<!--
+==Crystal structure of AmyK38 with rubidium ion==
-The line below this paragraph, containing "STRUCTURE_1ud5", creates the "Structure Box" on the page.
+<StructureSection load='1ud5' size='340' side='right'caption='[[1ud5]], [[Resolution|resolution]] 2.70&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'>[[1ud5]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_sp._KSM-K38 Bacillus sp. KSM-K38]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UD5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1UD5 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]] 2.7&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=RB:RUBIDIUM+ION'>RB</scene></td></tr>
-{{STRUCTURE_1ud5|  PDB=1ud5  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1ud5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ud5 OCA], [https://pdbe.org/1ud5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ud5 RCSB], [https://www.ebi.ac.uk/pdbsum/1ud5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ud5 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q93I48_9BACI Q93I48_9BACI]
+== 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/ud/1ud5_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=1ud5 ConSurf].
+<div style="clear:both"></div>
-===Crystal structure of AmyK38 with rubidium ion===
+==See Also==
+*[[Amylase 3D structures|Amylase 3D structures]]
+__TOC__
-<!--
+</StructureSection>
-The line below this paragraph, {{ABSTRACT_PUBMED_12719434}}, adds the Publication Abstract to the page
+[[Category: Bacillus sp. KSM-K38]]
-(as it appears on PubMed at http://www.pubmed.gov), where 12719434 is the PubMed ID number.
+[[Category: Large Structures]]
--->
+[[Category: Fujihashi M]]
-{{ABSTRACT_PUBMED_12719434}}
+[[Category: Hagihara H]]
+[[Category: Ito S]]
-==About this Structure==
+[[Category: Kita A]]
-UD5 is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Bacteria Bacteria]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UD5 OCA].
+[[Category: Miki K]]
+[[Category: Nonaka T]]
-==Reference==
+[[Category: Ozaki K]]
-Crystal structure of calcium-free alpha-amylase from Bacillus sp. strain KSM-K38 (AmyK38) and its sodium ion binding sites., Nonaka T, Fujihashi M, Kita A, Hagihara H, Ozaki K, Ito S, Miki K, J Biol Chem. 2003 Jul 4;278(27):24818-24. Epub 2003 Apr 28. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12719434 12719434]
-[[Category: Alpha-amylase]]
-[[Category: Bacteria]]
-[[Category: Single protein]]
-[[Category: Fujihashi, M.]]
-[[Category: Hagihara, H.]]
-[[Category: Ito, S.]]
-[[Category: Kita, A.]]
-[[Category: Miki, K.]]
-[[Category: Nonaka, T.]]
-[[Category: Ozaki, K.]]
-[[Category: Alkaline]]
-[[Category: Alpha-amylase]]
-[[Category: Calcium-free]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 13:06:34 2008''