4byy

From Proteopedia

(Difference between revisions)

Current revision

Apo GlxR

Structural highlights

4byy is a 2 chain structure with sequence from Corynebacterium glutamicum. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.48Å
Ligands:	,
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

CRPL_CORGL Global transcriptional regulator that complexes with cAMP and binds to specific DNA promoter sites, causing DNA-bending, to regulate transcription. cAMP improves binding to specific DNA sequences, probably by altering protein conformation. Involved in the regulation of gntP and gntK genes, which are involved in gluconate metabolism (PubMed:16385030). May form dimers which bind to the aceB promoter region in the presence of cAMP and repress the glyoxylate bypass genes (PubMed:15150232). It could be a positive regulator of rpf2 gene expression during growth on acetate as the sole carbon source, however because the cytosolic cAMP level is elevated in the presence of glucose and low upon growth on acetate, it is conceivable that it is unable to function as an activator under acetate conditions (PubMed:18355281).^[1] ^[2] ^[3]

Publication Abstract from PubMed

The cyclic AMP-dependent transcriptional regulator GlxR from Corynebacterium glutamicum is a member of the super-family of CRP/FNR (cyclic AMP receptor protein/fumarate and nitrate reduction regulator) transcriptional regulators that play central roles in bacterial metabolic regulatory networks. In C. glutamicum, which is widely used for the industrial production of amino acids and serves as a non-pathogenic model organism for members of the Corynebacteriales including Mycobacterium tuberculosis, the GlxR homodimer controls the transcription of a large number of genes involved in carbon metabolism. GlxR therefore represents a key target for understanding the regulation and coordination of C. glutamicum metabolism. Here we investigate cylic AMP and DNA binding of GlxR from C. glutamicum and describe the crystal structures of apo GlxR determined at a resolution of 2.5 A, and two crystal forms of holo GlxR at resolutions of 2.38 and 1.82 A, respectively. The detailed structural analysis and comparison of GlxR with CRP reveals that the protein undergoes a distinctive conformational change upon cyclic AMP binding leading to a dimer structure more compatible to DNA-binding. As the two binding sites in the GlxR homodimer are structurally identical dynamic changes upon binding of the first ligand are responsible for the allosteric behavior. The results presented here show how dynamic and structural changes in GlxR lead to optimization of orientation and distance of its two DNA-binding helices for optimal DNA recognition.

The Crystal Structures of Apo and cAMP-Bound GlxR from Corynebacterium glutamicum Reveal Structural and Dynamic Changes upon cAMP Binding in CRP/FNR Family Transcription Factors.,Townsend PD, Jungwirth B, Pojer F, Bussmann M, Money VA, Cole ST, Puhler A, Tauch A, Bott M, Cann MJ, Pohl E PLoS One. 2014 Dec 3;9(12):e113265. doi: 10.1371/journal.pone.0113265., eCollection 2014. PMID:25469635^[4]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Kim HJ, Kim TH, Kim Y, Lee HS. Identification and characterization of glxR, a gene involved in regulation of glyoxylate bypass in Corynebacterium glutamicum. J Bacteriol. 2004 Jun;186(11):3453-60. doi: 10.1128/JB.186.11.3453-3460.2004. PMID:15150232 doi:http://dx.doi.org/10.1128/JB.186.11.3453-3460.2004
↑ Letek M, Valbuena N, Ramos A, Ordonez E, Gil JA, Mateos LM. Characterization and use of catabolite-repressed promoters from gluconate genes in Corynebacterium glutamicum. J Bacteriol. 2006 Jan;188(2):409-23. doi: 10.1128/JB.188.2.409-423.2006. PMID:16385030 doi:http://dx.doi.org/10.1128/JB.188.2.409-423.2006
↑ Jungwirth B, Emer D, Brune I, Hansmeier N, Puhler A, Eikmanns BJ, Tauch A. Triple transcriptional control of the resuscitation promoting factor 2 (rpf2) gene of Corynebacterium glutamicum by the regulators of acetate metabolism RamA and RamB and the cAMP-dependent regulator GlxR. FEMS Microbiol Lett. 2008 Apr;281(2):190-7. doi:, 10.1111/j.1574-6968.2008.01098.x. Epub 2008 Mar 18. PMID:18355281 doi:http://dx.doi.org/10.1111/j.1574-6968.2008.01098.x
↑ Townsend PD, Jungwirth B, Pojer F, Bussmann M, Money VA, Cole ST, Puhler A, Tauch A, Bott M, Cann MJ, Pohl E. The Crystal Structures of Apo and cAMP-Bound GlxR from Corynebacterium glutamicum Reveal Structural and Dynamic Changes upon cAMP Binding in CRP/FNR Family Transcription Factors. PLoS One. 2014 Dec 3;9(12):e113265. doi: 10.1371/journal.pone.0113265., eCollection 2014. PMID:25469635 doi:http://dx.doi.org/10.1371/journal.pone.0113265

1 Structural highlights
2 Function
3 Publication Abstract from PubMed
4 See Also
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/4byy"

@@ Line 1: / Line 1: @@
 ==Apo GlxR==
-<StructureSection load='4byy' size='340' side='right' caption='[[4byy]], [[Resolution|resolution]] 2.48&Aring;' scene=''>
+<StructureSection load='4byy' size='340' side='right'caption='[[4byy]], [[Resolution|resolution]] 2.48&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4byy]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4BYY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4BYY FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4byy]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Corynebacterium_glutamicum Corynebacterium glutamicum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4BYY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4BYY FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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]] 2.48&#8491;</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=4byy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4byy OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4byy RCSB], [http://www.ebi.ac.uk/pdbsum/4byy PDBsum]</span></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></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=4byy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4byy OCA], [https://pdbe.org/4byy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4byy RCSB], [https://www.ebi.ac.uk/pdbsum/4byy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4byy ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/CRPL_CORGL CRPL_CORGL] Global transcriptional regulator that complexes with cAMP and binds to specific DNA promoter sites, causing DNA-bending, to regulate transcription. cAMP improves binding to specific DNA sequences, probably by altering protein conformation. Involved in the regulation of gntP and gntK genes, which are involved in gluconate metabolism (PubMed:16385030). May form dimers which bind to the aceB promoter region in the presence of cAMP and repress the glyoxylate bypass genes (PubMed:15150232). It could be a positive regulator of rpf2 gene expression during growth on acetate as the sole carbon source, however because the cytosolic cAMP level is elevated in the presence of glucose and low upon growth on acetate, it is conceivable that it is unable to function as an activator under acetate conditions (PubMed:18355281).<ref>PMID:15150232</ref> <ref>PMID:16385030</ref> <ref>PMID:18355281</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 14: / Line 18: @@
 From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 </div>
+<div class="pdbe-citations 4byy" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Transcriptional activator 3D structures|Transcriptional activator 3D structures]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Cann, M J]]
+[[Category: Corynebacterium glutamicum]]
-[[Category: Money, V A]]
+[[Category: Large Structures]]
-[[Category: Pohl, E]]
+[[Category: Cann MJ]]
-[[Category: Townsend, P D]]
+[[Category: Money VA]]
-[[Category: Transcription]]
+[[Category: Pohl E]]
+[[Category: Townsend PD]]

4byy

From Proteopedia

Current revision

Apo GlxR

Structural highlights

Function

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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