1lt0

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[[Image:1lt0.gif|left|200px]]<br /><applet load="1lt0" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="1lt0, resolution 2.40&Aring;" />
 
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'''Crystal structure of the CN-bound BjFixL heme domain'''<br />
 
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==Overview==
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==Crystal structure of the CN-bound BjFixL heme domain==
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Structures of the Bradyrhizobium japonicum FixL heme domain have been determined in the absence and presence of specific ligands to elucidate the detailed features of its O2 sensing mechanism. The putative roles of spin-state and steric hindrance were evaluated by the structure determination of ferrous CO-bound BjFixLH and correlating its features with other ligand-bound structures. As found for NO-BjFixLH, no protein conformational change was observed in CO-BjFixLH, suggesting a more complicated mechanism than solely spin state or ligand sterics. To evaluate the role of oxidation state, the structure of the ferrous deoxy-BjFixLH was determined. The structure of deoxy-BjFixLH was found to be virtually identical to the structure of the ferric met-BjFixLH. The role of hydrogen bonding of substrates to a heme-pocket water was evaluated by determining the structure of BjFixLH bound to 1-methyl-imidazole that cannot form a hydrogen bond with this water. In this case, the heme-mediated conformational change was observed, limiting the potential importance of this interaction. Finally, the structure of cyanomet-BjFixLH was revisited to rule out concerns regarding the partial occupancy of the cyanide ligand in a previous structure. In the revised structure, Arg 220 was found to move into the heme pocket to form a hydrogen bond to the bound cyanide ligand. The implications of these results on FixL's sensing mechanism are discussed.
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<StructureSection load='1lt0' size='340' side='right'caption='[[1lt0]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
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== Structural highlights ==
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==About this Structure==
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<table><tr><td colspan='2'>[[1lt0]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bradyrhizobium_japonicum Bradyrhizobium japonicum]. This structure supersedes the now removed PDB entries [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1drq 1drq] and [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1bv5 1bv5]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LT0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1LT0 FirstGlance]. <br>
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1LT0 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Bradyrhizobium_japonicum Bradyrhizobium japonicum] with <scene name='pdbligand=CYN:'>CYN</scene> and <scene name='pdbligand=HEM:'>HEM</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. This structure supersedes the now removed PDB entries 1DRQ and 1BV5. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1LT0 OCA].
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</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=CYN:CYANIDE+ION'>CYN</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene></td></tr>
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==Reference==
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1lt0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1lt0 OCA], [https://pdbe.org/1lt0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1lt0 RCSB], [https://www.ebi.ac.uk/pdbsum/1lt0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1lt0 ProSAT]</span></td></tr>
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Structure-based mechanism of O2 sensing and ligand discrimination by the FixL heme domain of Bradyrhizobium japonicum., Hao B, Isaza C, Arndt J, Soltis M, Chan MK, Biochemistry. 2002 Oct 29;41(43):12952-8. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12390021 12390021]
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/FIXL_BRADU FIXL_BRADU]
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/lt/1lt0_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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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=1lt0 ConSurf].
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<div style="clear:both"></div>
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__TOC__
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</StructureSection>
[[Category: Bradyrhizobium japonicum]]
[[Category: Bradyrhizobium japonicum]]
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[[Category: Single protein]]
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[[Category: Large Structures]]
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[[Category: Arndt, J.]]
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[[Category: Arndt J]]
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[[Category: Chan, M K.]]
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[[Category: Chan MK]]
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[[Category: Hao, B.]]
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[[Category: Hao B]]
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[[Category: Isaza, C.]]
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[[Category: Isaza C]]
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[[Category: Soltis, M.]]
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[[Category: Soltis M]]
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[[Category: CYN]]
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[[Category: HEM]]
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[[Category: pas fold]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 13:48:07 2008''
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Current revision

Crystal structure of the CN-bound BjFixL heme domain

PDB ID 1lt0

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