1drm: Difference between revisions

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


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==CRYSTAL STRUCTURE OF THE LIGAND FREE BJFIXL HEME DOMAIN==
The line below this paragraph, containing "STRUCTURE_1drm", creates the "Structure Box" on the page.
<StructureSection load='1drm' size='340' side='right'caption='[[1drm]], [[Resolution|resolution]] 2.40&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'>[[1drm]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bradyrhizobium_japonicum Bradyrhizobium japonicum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DRM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DRM 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]] 2.4&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene></td></tr>
{{STRUCTURE_1drm|  PDB=1drm  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1drm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1drm OCA], [https://pdbe.org/1drm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1drm RCSB], [https://www.ebi.ac.uk/pdbsum/1drm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1drm ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/FIXL_BRADU FIXL_BRADU] Putative oxygen sensor; modulates the activity of FixJ, a transcriptional activator of nitrogen fixation fixK gene. FixL probably acts as a kinase that phosphorylates FixJ.
== 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/dr/1drm_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=1drm ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The FixL proteins are biological oxygen sensors that restrict the expression of specific genes to hypoxic conditions. FixL's oxygen-detecting domain is a heme binding region that controls the activity of an attached histidine kinase. The FixL switch is regulated by binding of oxygen and other strong-field ligands. In the absence of bound ligand, the heme domain permits kinase activity. In the presence of bound ligand, this domain turns off kinase activity. Comparison of the structures of two forms of the Bradyrhizobium japonicum FixL heme domain, one in the "on" state without bound ligand and one in the "off" state with bound cyanide, reveals a mechanism of regulation by a heme that is distinct from the classical hemoglobin models. The close structural resemblance of the FixL heme domain to the photoactive yellow protein confirms the existence of a PAS structural motif but reveals the presence of an alternative regulatory gateway.


===CRYSTAL STRUCTURE OF THE LIGAND FREE BJFIXL HEME DOMAIN===
Structure of a biological oxygen sensor: a new mechanism for heme-driven signal transduction.,Gong W, Hao B, Mansy SS, Gonzalez G, Gilles-Gonzalez MA, Chan MK Proc Natl Acad Sci U S A. 1998 Dec 22;95(26):15177-82. PMID:9860942<ref>PMID:9860942</ref>


 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
The line below this paragraph, {{ABSTRACT_PUBMED_9860942}}, adds the Publication Abstract to the page
<div class="pdbe-citations 1drm" style="background-color:#fffaf0;"></div>
(as it appears on PubMed at http://www.pubmed.gov), where 9860942 is the PubMed ID number.
== References ==
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<references/>
{{ABSTRACT_PUBMED_9860942}}
__TOC__
 
</StructureSection>
==About this Structure==
1DRM is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Bradyrhizobium_japonicum Bradyrhizobium japonicum]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1bv6 1bv6]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DRM OCA].
 
==Reference==
<ref group="xtra">PMID:9860942</ref><references group="xtra"/>
[[Category: Bradyrhizobium japonicum]]
[[Category: Bradyrhizobium japonicum]]
[[Category: Chan, M K.]]
[[Category: Large Structures]]
[[Category: Gilles-Gonzalez, M A.]]
[[Category: Chan MK]]
[[Category: Gong, W.]]
[[Category: Gilles-Gonzalez MA]]
[[Category: Gonzalez, G.]]
[[Category: Gong W]]
[[Category: Hao, B.]]
[[Category: Gonzalez G]]
[[Category: Mansy, S S.]]
[[Category: Hao B]]
[[Category: Crystal structure]]
[[Category: Mansy SS]]
[[Category: Fixl]]
[[Category: Heme domain]]
[[Category: Histidine kinase]]
[[Category: Pas family]]
[[Category: Transferase]]
[[Category: Two-component system]]
 
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Retrieved from "https://proteopedia.org/1drm"