1np7: Difference between revisions

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-{{Seed}}
-[[Image:1np7.png|left|200px]]
-<!--
+==Crystal Structure Analysis of Synechocystis sp. PCC6803 cryptochrome==
-The line below this paragraph, containing "STRUCTURE_1np7", creates the "Structure Box" on the page.
+<StructureSection load='1np7' size='340' side='right'caption='[[1np7]], [[Resolution|resolution]] 1.90&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'>[[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>
-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]] 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>
-{{STRUCTURE_1np7|  PDB=1np7  |  SCENE=  }}
+<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>
+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>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_12535521}}, adds the Publication Abstract to the page
+*[[Cryptochrome 3D structures|Cryptochrome 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 12535521 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_12535521}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-NP7 is a [[Single protein]] structure of 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].
+[[Category: Synechocystis sp. PCC 6803]]
+[[Category: Brudler R]]
-==Reference==
+[[Category: Daiyasu H]]
-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:[http://www.ncbi.nlm.nih.gov/pubmed/12535521 12535521]
+[[Category: Getzoff ED]]
-[[Category: Single protein]]
+[[Category: Hitomi K]]
-[[Category: Synechocystis sp.]]
+[[Category: Ishiura M]]
-[[Category: Brudler, R.]]
+[[Category: Kanehisa M]]
-[[Category: Daiyasu, H.]]
+[[Category: Kucho K]]
-[[Category: Getzoff, E D.]]
+[[Category: Roberts VA]]
-[[Category: Hitomi, K.]]
+[[Category: Tainer JA]]
-[[Category: Ishiura, M.]]
+[[Category: Todo T]]
-[[Category: Kanehisa, M.]]
+[[Category: Toh H]]
-[[Category: Kucho, K.]]
-[[Category: Roberts, V A.]]
-[[Category: Tainer, J A.]]
-[[Category: Todo, T.]]
-[[Category: Toh, H.]]
-[[Category: Protein with fad cofactor]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 11:47:59 2008''