1dpp: Difference between revisions

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-{{Seed}}
-[[Image:1dpp.png|left|200px]]
-<!--
+==DIPEPTIDE BINDING PROTEIN COMPLEX WITH GLYCYL-L-LEUCINE==
-The line below this paragraph, containing "STRUCTURE_1dpp", creates the "Structure Box" on the page.
+<StructureSection load='1dpp' size='340' side='right'caption='[[1dpp]], [[Resolution|resolution]] 3.20&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'>[[1dpp]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DPP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DPP 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]] 3.2&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GLY:GLYCINE'>GLY</scene>, <scene name='pdbligand=LEU:LEUCINE'>LEU</scene></td></tr>
-{{STRUCTURE_1dpp|  PDB=1dpp  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1dpp FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dpp OCA], [https://pdbe.org/1dpp PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1dpp RCSB], [https://www.ebi.ac.uk/pdbsum/1dpp PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1dpp ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/DPPA_ECOLI DPPA_ECOLI] Dipeptide-binding protein of a transport system that can be subject to osmotic shock. DppA is also required for peptide chemotaxis.
+== 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/dp/1dpp_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=1dpp ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The Escherichia coli periplasmic dipeptide binding protein functions in both peptide transport and taxis toward peptides. The structure of the dipeptide binding protein in complex with Gly-Leu (glycyl-L-leucine) has been determined at 3.2 A resolution. The binding site for dipeptides is designed to recognize the ligand's backbone while providing space to accommodate a variety of side chains. Some repositioning of protein side chains lining the binding site must occur when the dipeptide's second residue is larger than leucine. The protein's fold is very similar to that of the Salmonella typhimurium oligopeptide binding protein, and a comparison of the structures reveals the structural basis for the dipeptide binding protein's preference for shorter peptides.
-===DIPEPTIDE BINDING PROTEIN COMPLEX WITH GLYCYL-L-LEUCINE===
+Crystal structure of the dipeptide binding protein from Escherichia coli involved in active transport and chemotaxis.,Dunten P, Mowbray SL Protein Sci. 1995 Nov;4(11):2327-34. PMID:8563629<ref>PMID:8563629</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_8563629}}, adds the Publication Abstract to the page
+<div class="pdbe-citations 1dpp" style="background-color:#fffaf0;"></div>
-(as it appears on PubMed at http://www.pubmed.gov), where 8563629 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_8563629}}
+__TOC__
+</StructureSection>
-==About this Structure==
-DPP is a 8 chains structure of sequences from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DPP OCA].
-==Reference==
-<ref group="xtra">PMID:8563629</ref><references group="xtra"/>
 [[Category: Escherichia coli]]
-[[Category: Dunten, P.]]
+[[Category: Large Structures]]
-[[Category: Mowbray, S L.]]
+[[Category: Dunten P]]
-[[Category: Chemotaxis]]
+[[Category: Mowbray SL]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 21:18:40 2009''