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| | <StructureSection load='3sxk' size='340' side='right'caption='[[3sxk]], [[Resolution|resolution]] 1.63Å' scene=''> | | <StructureSection load='3sxk' size='340' side='right'caption='[[3sxk]], [[Resolution|resolution]] 1.63Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[3sxk]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_43589 Atcc 43589]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3SXK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3SXK FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[3sxk]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermotoga_maritima Thermotoga maritima]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3SXK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3SXK FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BCT:BICARBONATE+ION'>BCT</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 1.63Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3fms|3fms]], [[3sxy|3sxy]], [[3sxm|3sxm]], [[3sxz|3sxz]]</div></td></tr> | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BCT:BICARBONATE+ION'>BCT</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">TM_0439 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2336 ATCC 43589])</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=3sxk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3sxk OCA], [https://pdbe.org/3sxk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3sxk RCSB], [https://www.ebi.ac.uk/pdbsum/3sxk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3sxk 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=3sxk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3sxk OCA], [https://pdbe.org/3sxk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3sxk RCSB], [https://www.ebi.ac.uk/pdbsum/3sxk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3sxk ProSAT]</span></td></tr> |
| | </table> | | </table> |
| - | <div style="background-color:#fffaf0;">
| + | == Function == |
| - | == Publication Abstract from PubMed == | + | [https://www.uniprot.org/uniprot/Q9WYS0_THEMA Q9WYS0_THEMA] |
| - | The GntR superfamily of dimeric transcription factors, with more than 6200 members encoded in bacterial genomes, are characterized by N-terminal winged-helix DNA-binding domains and diverse C-terminal regulatory domains which provide a basis for the classification of the constituent families. The largest of these families, FadR, contains nearly 3000 proteins with all-alpha-helical regulatory domains classified into two related Pfam families: FadR_C and FCD. Only two crystal structures of FadR-family members, those of Escherichia coli FadR protein and LldR from Corynebacterium glutamicum, have been described to date in the literature. Here, the crystal structure of TM0439, a GntR regulator with an FCD domain found in the Thermotoga maritima genome, is described. The FCD domain is similar to that of the LldR regulator and contains a buried metal-binding site. Using atomic absorption spectroscopy and Trp fluorescence, it is shown that the recombinant protein contains bound Ni(2+) ions but that it is able to bind Zn(2+) with K(d) < 70 nM. It is concluded that Zn(2+) is the likely physiological metal and that it may perform either structural or regulatory roles or both. Finally, the TM0439 structure is compared with two other FadR-family structures recently deposited by structural genomics consortia. The results call for a revision in the classification of the FadR family of transcription factors.
| + | |
| - | | + | |
| - | Structure of Thermotoga maritima TM0439: implications for the mechanism of bacterial GntR transcription regulators with Zn2+-binding FCD domains.,Zheng M, Cooper DR, Grossoehme NE, Yu M, Hung LW, Cieslik M, Derewenda U, Lesley SA, Wilson IA, Giedroc DP, Derewenda ZS Acta Crystallogr D Biol Crystallogr. 2009 Apr;65(Pt 4):356-65. Epub 2009, Mar 19. PMID:19307717<ref>PMID:19307717</ref>
| + | |
| - | | + | |
| - | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
| + | |
| - | </div>
| + | |
| - | <div class="pdbe-citations 3sxk" style="background-color:#fffaf0;"></div>
| + | |
| - | == References ==
| + | |
| - | <references/>
| + | |
| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Atcc 43589]] | |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Czelakowski, G P]] | + | [[Category: Thermotoga maritima]] |
| - | [[Category: Derewenda, Z S]] | + | [[Category: Czelakowski GP]] |
| - | [[Category: ISFI, Integrated Center for Structure and Function Innovation]] | + | [[Category: Derewenda ZS]] |
| - | [[Category: Dna-binding]]
| + | |
| - | [[Category: Fadr]]
| + | |
| - | [[Category: Fadr-c]]
| + | |
| - | [[Category: Gntr]]
| + | |
| - | [[Category: Integrated center for structure and function innovation]]
| + | |
| - | [[Category: Isfi]]
| + | |
| - | [[Category: Metal-binding]]
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| - | [[Category: Nickel-binding]]
| + | |
| - | [[Category: PSI, Protein structure initiative]]
| + | |
| - | [[Category: Structural genomic]]
| + | |
| - | [[Category: Surface entropy reduction]]
| + | |
| - | [[Category: Transcription]]
| + | |
| - | [[Category: Transcription factor]]
| + | |
| - | [[Category: Transcription regulator]]
| + | |
| - | [[Category: Transcription repressor]]
| + | |
| - | [[Category: Transcriptional regulator]]
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| - | [[Category: Zinc-binding]]
| + | |
