3whb

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (08:45, 20 March 2024) (edit) (undo)
 
(2 intermediate revisions not shown.)
Line 1: Line 1:
==Crystal structure of FadR from Bacillus subtilis, a transcriptional regulator involved in the regulation of fatty acid degradation==
==Crystal structure of FadR from Bacillus subtilis, a transcriptional regulator involved in the regulation of fatty acid degradation==
-
<StructureSection load='3whb' size='340' side='right' caption='[[3whb]], [[Resolution|resolution]] 2.15&Aring;' scene=''>
+
<StructureSection load='3whb' size='340' side='right'caption='[[3whb]], [[Resolution|resolution]] 2.15&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
-
<table><tr><td colspan='2'>[[3whb]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3WHB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3WHB FirstGlance]. <br>
+
<table><tr><td colspan='2'>[[3whb]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis_subsp._subtilis_str._168 Bacillus subtilis subsp. subtilis str. 168]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3WHB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3WHB FirstGlance]. <br>
-
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=DCC:DODECYL-COA'>DCC</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]] 2.15&#8491;</td></tr>
-
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3whc|3whc]], [[1vi0|1vi0]]</td></tr>
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DCC:DODECYL-COA'>DCC</scene></td></tr>
-
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3whb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3whb OCA], [http://pdbe.org/3whb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3whb RCSB], [http://www.ebi.ac.uk/pdbsum/3whb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3whb 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=3whb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3whb OCA], [https://pdbe.org/3whb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3whb RCSB], [https://www.ebi.ac.uk/pdbsum/3whb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3whb ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
-
[[http://www.uniprot.org/uniprot/FADR_BACSU FADR_BACSU]] Transcriptional regulator in fatty acid degradation. Represses transcription of genes required for fatty acid transport and beta-oxidation, including acdA, fadA, fadB, fadE, fadF, fadG, fadH, fadM, fadN, lcfA and lcfB. Binding of FadR to DNA is specifically inhibited by long chain fatty acyl-CoA compounds of 14-20 carbon atoms in length.
+
[https://www.uniprot.org/uniprot/FADR_BACSU FADR_BACSU] Transcriptional regulator in fatty acid degradation. Represses transcription of genes required for fatty acid transport and beta-oxidation, including acdA, fadA, fadB, fadE, fadF, fadG, fadH, fadM, fadN, lcfA and lcfB. Binding of FadR to DNA is specifically inhibited by long chain fatty acyl-CoA compounds of 14-20 carbon atoms in length.
-
<div style="background-color:#fffaf0;">
+
-
== Publication Abstract from PubMed ==
+
-
Bacillus subtilis FadR (FadRBs ), a member of the TetR family of bacterial transcriptional regulators, represses five fad operons including 15 genes, most of which are involved in beta-oxidation of fatty acids. FadRBs binds to the five FadRBs boxes in the promoter regions and the binding is specifically inhibited by long-chain (C14 -C20 ) acyl-CoAs, causing derepression of the fad operons. To elucidate the structural mechanism of this regulator, we have determined the crystal structures of FadRBs proteins prepared with and without stearoyl(C18 )-CoA. The crystal structure without adding any ligand molecules unexpectedly includes one small molecule, probably dodecyl(C12 )-CoA derived from the Escherichia coli host, in its homodimeric structure. Also, we successfully obtained the structure of the ligand-bound form of the FadRBs dimer by co-crystallization, in which two stearoyl-CoA molecules are accommodated, with the binding mode being essentially equivalent to that of dodecyl-CoA. Although the acyl-chain-binding cavity of FadRBs is mainly hydrophobic, a hydrophilic patch encompasses the C1-C10 carbons of the acyl chain. This accounts for the previous report that the DNA binding of FadRBs is specifically inhibited by the long-chain acyl-CoAs but not by the shorter ones. Structural comparison of the ligand-bound and unliganded subunits of FadRBs revealed three regions around residues 21-31, 61-76, and 106-119 that were substantially changed in response to the ligand binding, and particularly with respect to the movements of Leu108 and Arg109. Site-directed mutagenesis of these residues revealed that Arg109, but not Leu108, is a key residue for maintenance of the DNA-binding affinity of FadRBs . Proteins 2014. (c) 2013 Wiley Periodicals, Inc.
+
-
 
+
-
Structural characterization of a ligand-bound form of Bacillus subtilis FadR involved in the regulation of fatty acid degradation.,Fujihashi M, Nakatani T, Hirooka K, Matsuoka H, Fujita Y, Miki K Proteins. 2013 Dec 20. doi: 10.1002/prot.24496. PMID:24356978<ref>PMID:24356978</ref>
+
-
 
+
-
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+
-
</div>
+
-
<div class="pdbe-citations 3whb" style="background-color:#fffaf0;"></div>
+
-
== References ==
+
-
<references/>
+
__TOC__
__TOC__
</StructureSection>
</StructureSection>
-
[[Category: Fujihashi, M]]
+
[[Category: Bacillus subtilis subsp. subtilis str. 168]]
-
[[Category: Miki, K]]
+
[[Category: Large Structures]]
-
[[Category: Nakatani, T]]
+
[[Category: Fujihashi M]]
-
[[Category: Fatty acid degradation]]
+
[[Category: Miki K]]
-
[[Category: Transcription]]
+
[[Category: Nakatani T]]
-
[[Category: Transcriptional regulator]]
+

Current revision

Crystal structure of FadR from Bacillus subtilis, a transcriptional regulator involved in the regulation of fatty acid degradation

PDB ID 3whb

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3whb"
Personal tools