1np7: Difference between revisions

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-[[Image:1np7.png|left|200px]]
-{{STRUCTURE_1np7|  PDB=1np7  |  SCENE=  }}
+==Crystal Structure Analysis of Synechocystis sp. PCC6803 cryptochrome==
+<StructureSection load='1np7' size='340' side='right'caption='[[1np7]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1np7]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Synechocystis_sp._PCC_6803 Synechocystis sp. PCC 6803]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NP7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1NP7 FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.9&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=1np7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1np7 OCA], [https://pdbe.org/1np7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1np7 RCSB], [https://www.ebi.ac.uk/pdbsum/1np7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1np7 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/CRYD_SYNY3 CRYD_SYNY3] May have a photoreceptor function. Binds DNA; represses transcription of at least 8 genes, including slr0364 and slr1866. Does not encode a DNA photolyase function. Its disruption does not affect circadian rhythm.
+== 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/np/1np7_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=1np7 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Cryptochrome flavoproteins, which share sequence homology with light-dependent DNA repair photolyases, function as photoreceptors in plants and circadian clock components in animals. Here, we coupled sequencing of an Arabidopsis cryptochrome gene with phylogenetic, structural, and functional analyses to identify a new cryptochrome class (cryptochrome DASH) in bacteria and plants, suggesting that cryptochromes evolved before the divergence of eukaryotes and prokaryotes. The cryptochrome crystallographic structure, reported here for Synechocystis cryptochrome DASH, reveals commonalities with photolyases in DNA binding and redox-dependent function, despite distinct active-site and interaction surface features. Whole genome transcriptional profiling together with experimental confirmation of DNA binding indicated that Synechocystis cryptochrome DASH functions as a transcriptional repressor.
-===Crystal Structure Analysis of Synechocystis sp. PCC6803 cryptochrome===
+Identification of a new cryptochrome class. Structure, function, and evolution.,Brudler R, Hitomi K, Daiyasu H, Toh H, Kucho K, Ishiura M, Kanehisa M, Roberts VA, Todo T, Tainer JA, Getzoff ED Mol Cell. 2003 Jan;11(1):59-67. PMID:12535521<ref>PMID:12535521</ref>
-{{ABSTRACT_PUBMED_12535521}}
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1np7" style="background-color:#fffaf0;"></div>
-==About this Structure==
+==See Also==
-[[1np7]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Synechocystis_sp. Synechocystis sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NP7 OCA].
+*[[Cryptochrome 3D structures|Cryptochrome 3D structures]]
+== References ==
-==Reference==
+<references/>
-<ref group="xtra">PMID:012535521</ref><references group="xtra"/>
+__TOC__
-[[Category: Synechocystis sp.]]
+</StructureSection>
-[[Category: Brudler, R.]]
+[[Category: Large Structures]]
-[[Category: Daiyasu, H.]]
+[[Category: Synechocystis sp. PCC 6803]]
-[[Category: Getzoff, E D.]]
+[[Category: Brudler R]]
-[[Category: Hitomi, K.]]
+[[Category: Daiyasu H]]
-[[Category: Ishiura, M.]]
+[[Category: Getzoff ED]]
-[[Category: Kanehisa, M.]]
+[[Category: Hitomi K]]
-[[Category: Kucho, K.]]
+[[Category: Ishiura M]]
-[[Category: Roberts, V A.]]
+[[Category: Kanehisa M]]
-[[Category: Tainer, J A.]]
+[[Category: Kucho K]]
-[[Category: Todo, T.]]
+[[Category: Roberts VA]]
-[[Category: Toh, H.]]
+[[Category: Tainer JA]]
-[[Category: Lyase]]
+[[Category: Todo T]]
-[[Category: Protein with fad cofactor]]
+[[Category: Toh H]]