1rtx: Difference between revisions

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 <StructureSection load='1rtx' size='340' side='right'caption='[[1rtx]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[1rtx]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Aphanocapsa_sp._(strain_n-1) Aphanocapsa sp. (strain n-1)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1RTX OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1RTX FirstGlance]. <br>
+<table><tr><td colspan='2'>[[1rtx]] is a 1 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=1RTX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1RTX FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.8&#8491;</td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">GLBN, SLR2097 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1148 Aphanocapsa sp. (strain N-1)])</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CD:CADMIUM+ION'>CD</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</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'>[http://proteopedia.org/fgij/fg.htm?mol=1rtx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1rtx OCA], [http://pdbe.org/1rtx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1rtx RCSB], [http://www.ebi.ac.uk/pdbsum/1rtx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1rtx ProSAT]</span></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=1rtx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1rtx OCA], [https://pdbe.org/1rtx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1rtx RCSB], [https://www.ebi.ac.uk/pdbsum/1rtx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1rtx ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/TRHBN_SYNY3 TRHBN_SYNY3]] Forms a very stable complex with oxygen. The oxygen dissociation rate is 0.011 s(-1).
+[https://www.uniprot.org/uniprot/TRHBN_SYNY3 TRHBN_SYNY3] Forms a very stable complex with oxygen. The oxygen dissociation rate is 0.011 s(-1).
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
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 </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=1rtx ConSurf].
 <div style="clear:both"></div>
-<div style="background-color:#fffaf0;">
-== Publication Abstract from PubMed ==
-The x-ray crystal structure of Synechocystis hemoglobin has been solved to a resolution of 1.8 A. The conformation of this structure is surprisingly different from that of the previously reported solution structure, probably due in part to a covalent linkage between the heme 2-vinyl and His117 that is present in the crystal structure but not in the structure solved by NMR. Synechocystis hemoglobin is a hexacoordinate hemoglobin in which the heme iron is coordinated by both the proximal and distal histidines. It is also a member of the "truncated hemoglobin" family that is much shorter in primary structure than vertebrate and plant hemoglobins. In contrast to other truncated hemoglobins, the crystal structure of Synechocystis hemoglobin displays no "ligand tunnel" and shows that several important amino acid side chains extrude into the solvent instead of residing inside the heme pocket. The stereochemistry of hexacoordination is compared with other hexacoordinate hemoglobins and cytochromes in an effort to illuminate factors contributing to ligand affinity in hexacoordinate hemoglobins.
-The crystal structure of Synechocystis hemoglobin with a covalent heme linkage.,Hoy JA, Kundu S, Trent JT 3rd, Ramaswamy S, Hargrove MS J Biol Chem. 2004 Apr 16;279(16):16535-42. Epub 2004 Jan 21. PMID:14736872<ref>PMID:14736872</ref>
-From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-</div>
-<div class="pdbe-citations 1rtx" style="background-color:#fffaf0;"></div>
 ==See Also==
 *[[Hemoglobin 3D structures|Hemoglobin 3D structures]]
-== References ==
-<references/>
 __TOC__
 </StructureSection>
 [[Category: Large Structures]]
-[[Category: Hargrove, M S]]
+[[Category: Synechocystis sp. PCC 6803]]
-[[Category: Hoy, J A]]
+[[Category: Hargrove MS]]
-[[Category: Kundu, S]]
+[[Category: Hoy JA]]
-[[Category: Ramaswamy, S]]
+[[Category: Kundu S]]
-[[Category: Trent, J T]]
+[[Category: Ramaswamy S]]
-[[Category: Hemichrome]]
+[[Category: Trent JT]]
-[[Category: Hexacoordinate]]
-[[Category: Oxygen storage-transport complex]]
-[[Category: Synechocystis hemoglobin]]
-[[Category: Truncated]]