1rtx: Difference between revisions

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{{Seed}}
[[Image:1rtx.png|left|200px]]


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==Crystal Structure of Synechocystis Hemoglobin with a Covalent Heme Linkage==
The line below this paragraph, containing "STRUCTURE_1rtx", creates the "Structure Box" on the page.
<StructureSection load='1rtx' size='340' side='right'caption='[[1rtx]], [[Resolution|resolution]] 1.80&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'>[[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>
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]] 1.8&#8491;</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>
{{STRUCTURE_1rtx|  PDB=1rtx  |  SCENE=  }}
<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 ==
[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]]
Check<jmol>
  <jmolCheckbox>
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/rt/1rtx_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=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.


===Crystal Structure of Synechocystis Hemoglobin with a Covalent Heme Linkage===
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==
The line below this paragraph, {{ABSTRACT_PUBMED_14736872}}, adds the Publication Abstract to the page
*[[Hemoglobin 3D structures|Hemoglobin 3D structures]]
(as it appears on PubMed at http://www.pubmed.gov), where 14736872 is the PubMed ID number.
== References ==
-->
<references/>
{{ABSTRACT_PUBMED_14736872}}
__TOC__
 
</StructureSection>
==About this Structure==
[[Category: Large Structures]]
1RTX is a 1 chain 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=1RTX OCA].
[[Category: Synechocystis sp. PCC 6803]]
 
[[Category: Hargrove MS]]
==Reference==
[[Category: Hoy JA]]
<ref group="xtra">PMID:14736872</ref><references group="xtra"/>
[[Category: Kundu S]]
[[Category: Synechocystis sp.]]
[[Category: Ramaswamy S]]
[[Category: Hargrove, M S.]]
[[Category: Trent JT]]
[[Category: Hoy, J A.]]
[[Category: Kundu, S.]]
[[Category: Ramaswamy, S.]]
[[Category: Trent, J T.]]
[[Category: Crystal structure]]
[[Category: Hemichrome]]
[[Category: Hexacoordinate]]
[[Category: Synechocystis hemoglobin]]
[[Category: Truncated]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 17:29:56 2009''

Latest revision as of 07:05, 13 August 2026

Crystal Structure of Synechocystis Hemoglobin with a Covalent Heme Linkage

1rtx, resolution 1.80Å

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