2dgc: Difference between revisions

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-[[Image:2dgc.gif|left|200px]]
- {{Structure
+==GCN4 BASIC DOMAIN, LEUCINE ZIPPER COMPLEXED WITH ATF/CREB SITE DNA==
-|PDB= 2dgc |SIZE=350|CAPTION= <scene name='initialview01'>2dgc</scene>, resolution 2.200&Aring;
+<StructureSection load='2dgc' size='340' side='right'caption='[[2dgc]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
-|SITE=
+== Structural highlights ==
-|LIGAND= <scene name='pdbligand=DA:2&#39;-DEOXYADENOSINE-5&#39;-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2&#39;-DEOXYCYTIDINE-5&#39;-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2&#39;-DEOXYGUANOSINE-5&#39;-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DT:THYMIDINE-5&#39;-MONOPHOSPHATE'>DT</scene>
+<table><tr><td colspan='2'>[[2dgc]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DGC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2DGC FirstGlance]. <br>
-|ACTIVITY=
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.2&#8491;</td></tr>
-|GENE=
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2dgc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dgc OCA], [https://pdbe.org/2dgc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2dgc RCSB], [https://www.ebi.ac.uk/pdbsum/2dgc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2dgc ProSAT]</span></td></tr>
-|DOMAIN=
+</table>
-|RELATEDENTRY=
+== Function ==
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2dgc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2dgc OCA], [http://www.ebi.ac.uk/pdbsum/2dgc PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2dgc RCSB]</span>
+[https://www.uniprot.org/uniprot/GCN4_YEAST GCN4_YEAST] Is a transcription factor that is responsible for the activation of more than 30 genes required for amino acid or for purine biosynthesis in response to amino acid or purine starvation. Binds and recognize the DNA sequence: 5'-TGA[CG]TCA-3'.
-}}
+== 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/dg/2dgc_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=2dgc ConSurf].
+<div style="clear:both"></div>
-'''GCN4 BASIC DOMAIN, LEUCINE ZIPPER COMPLEXED WITH ATF/CREB SITE DNA'''
+==See Also==
+*[[Gcn4|Gcn4]]
+*[[Gcn4 3D Structures|Gcn4 3D Structures]]
-==Overview==
+*[[Gnc4 3D Structures|Gnc4 3D Structures]]
-The X-ray structure of the GCN4-bZIP protein bound to DNA containing the ATF/CREB recognition sequence has been refined at 2.2 A. The water-mediated interactions between the basic domain and DNA are revealed, and combined with a more accurate description of the direct contacts, further clarify how binding specificity is achieved. Water molecules extend the interactions of both invariant basic domain residues, asparagine 235 and arginine 243, beyond their direct base contacts. The slight bending of the basic domain alpha-helix around the DNA facilitates the linking of arginine 241, 243 and 245 to main-chain carbonyl oxygen atoms via water molecules, apparently stabilizing interactions with the DNA.
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-DGC is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DGC OCA].
-==Reference==
-Crystal structure of a bZIP/DNA complex at 2.2 A: determinants of DNA specific recognition., Keller W, Konig P, Richmond TJ, J Mol Biol. 1995 Dec 8;254(4):657-67. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/7500340 7500340]
 [[Category: Saccharomyces cerevisiae]]
-[[Category: Single protein]]
+[[Category: Keller W]]
-[[Category: Keller, W.]]
+[[Category: Koenig P]]
-[[Category: Koenig, P.]]
+[[Category: Richmond TJ]]
-[[Category: Richmond, T J.]]
-[[Category: basic domain]]
-[[Category: dna binding]]
-[[Category: eukaryotic regulatory protein]]
-[[Category: leucine zipper]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 02:34:18 2008''