4pt4

From Proteopedia

(Difference between revisions)

Current revision

Crystal structure Analysis of N terminal region containing the dimerization domain and DNA binding domain of HU protein(Histone like protein-DNA binding) from Mycobacterium tuberculosis [H37Rv]

Structural highlights

4pt4 is a 2 chain structure with sequence from Mycobacterium tuberculosis. This structure supersedes the now removed PDB entry 3c4i. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:	X-ray diffraction, Resolution 2.04Å
Ligands:
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

DBH_MYCTU Histone-like DNA-binding protein which is capable of wrapping DNA to stabilize it, and thus to prevent its denaturation under extreme environmental conditions. Binds DNA non-specifically. Induces lymphoproliferation, particularly in health tuberculin reactors, and is immunogenic. Maybe involved in pathogenesis of inflammatory bowel disease (IBD) in patients with ulcerative colitis and Crohn disease (CD). Bound by anti-neutrophil cytoplasmic antibodies (pANCA), which are a hallmark of IBD. The binding is due to pANCA directed against HIST1H1D cross-reacting with DBH epitopes. In CD, target of a strong IgA response.^[1] ^[2]

Publication Abstract from PubMed

The nucleoid-associated protein HU plays an important role in maintenance of chromosomal architecture and in global regulation of DNA transactions in bacteria. Although HU is essential for growth in Mycobacterium tuberculosis (Mtb), there have been no reported attempts to perturb HU function with small molecules. Here we report the crystal structure of the N-terminal domain of HU from Mtb. We identify a core region within the HU-DNA interface that can be targeted using stilbene derivatives. These small molecules specifically inhibit HU-DNA binding, disrupt nucleoid architecture and reduce Mtb growth. The stilbene inhibitors induce gene expression changes in Mtb that resemble those induced by HU deficiency. Our results indicate that HU is a potential target for the development of therapies against tuberculosis.

Targeting Mycobacterium tuberculosis nucleoid-associated protein HU with structure-based inhibitors.,Bhowmick T, Ghosh S, Dixit K, Ganesan V, Ramagopal UA, Dey D, Sarma SP, Ramakumar S, Nagaraja V Nat Commun. 2014 Jun 11;5:4124. doi: 10.1038/ncomms5124. PMID:24916461^[3]

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

References

↑ Cohavy O, Harth G, Horwitz M, Eggena M, Landers C, Sutton C, Targan SR, Braun J. Identification of a novel mycobacterial histone H1 homologue (HupB) as an antigenic target of pANCA monoclonal antibody and serum immunoglobulin A from patients with Crohn's disease. Infect Immun. 1999 Dec;67(12):6510-7. PMID:10569769
↑ Prabhakar S, Annapurna PS, Jain NK, Dey AB, Tyagi JS, Prasad HK. Identification of an immunogenic histone-like protein (HLPMt) of Mycobacterium tuberculosis. Tuber Lung Dis. 1998;79(1):43-53. PMID:10645441 doi:http://dx.doi.org/10.1054/tuld.1998.0004
↑ Bhowmick T, Ghosh S, Dixit K, Ganesan V, Ramagopal UA, Dey D, Sarma SP, Ramakumar S, Nagaraja V. Targeting Mycobacterium tuberculosis nucleoid-associated protein HU with structure-based inhibitors. Nat Commun. 2014 Jun 11;5:4124. doi: 10.1038/ncomms5124. PMID:24916461 doi:http://dx.doi.org/10.1038/ncomms5124

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

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/4pt4"

@@ Line 1: / Line 1: @@
 ==Crystal structure Analysis of N terminal region containing the dimerization domain and DNA binding domain of HU protein(Histone like protein-DNA binding) from Mycobacterium tuberculosis [H37Rv]==
-<StructureSection load='4pt4' size='340' side='right' caption='[[4pt4]], [[Resolution|resolution]] 2.04&Aring;' scene=''>
+<StructureSection load='4pt4' size='340' side='right'caption='[[4pt4]], [[Resolution|resolution]] 2.04&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4pt4]] is a 2 chain structure. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3c4i 3c4i]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PT4 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4PT4 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4pt4]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=3c4i 3c4i]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4PT4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4PT4 FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FMT:FORMIC+ACID'>FMT</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]] 2.04&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[4dky|4dky]]</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FMT:FORMIC+ACID'>FMT</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=4pt4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4pt4 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4pt4 RCSB], [http://www.ebi.ac.uk/pdbsum/4pt4 PDBsum]</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=4pt4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4pt4 OCA], [https://pdbe.org/4pt4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4pt4 RCSB], [https://www.ebi.ac.uk/pdbsum/4pt4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4pt4 ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/DBH_MYCTU DBH_MYCTU]] Histone-like DNA-binding protein which is capable of wrapping DNA to stabilize it, and thus to prevent its denaturation under extreme environmental conditions. Binds DNA non-specifically. Induces lymphoproliferation, particularly in health tuberculin reactors, and is immunogenic. Maybe involved in pathogenesis of inflammatory bowel disease (IBD) in patients with ulcerative colitis and Crohn disease (CD). Bound by anti-neutrophil cytoplasmic antibodies (pANCA), which are a hallmark of IBD. The binding is due to pANCA directed against HIST1H1D cross-reacting with DBH epitopes. In CD, target of a strong IgA response.<ref>PMID:10569769</ref> <ref>PMID:10645441</ref>
+[https://www.uniprot.org/uniprot/DBH_MYCTU DBH_MYCTU] Histone-like DNA-binding protein which is capable of wrapping DNA to stabilize it, and thus to prevent its denaturation under extreme environmental conditions. Binds DNA non-specifically. Induces lymphoproliferation, particularly in health tuberculin reactors, and is immunogenic. Maybe involved in pathogenesis of inflammatory bowel disease (IBD) in patients with ulcerative colitis and Crohn disease (CD). Bound by anti-neutrophil cytoplasmic antibodies (pANCA), which are a hallmark of IBD. The binding is due to pANCA directed against HIST1H1D cross-reacting with DBH epitopes. In CD, target of a strong IgA response.<ref>PMID:10569769</ref> <ref>PMID:10645441</ref>
 <div style="background-color:#fffaf0;">
 == Publication Abstract from PubMed ==
@@ Line 17: / Line 18: @@
 From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 </div>
+<div class="pdbe-citations 4pt4" style="background-color:#fffaf0;"></div>
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Bhowmick, T]]
+[[Category: Large Structures]]
-[[Category: Ghosh, S]]
+[[Category: Mycobacterium tuberculosis]]
-[[Category: Nagaraja, V]]
+[[Category: Bhowmick T]]
-[[Category: Ramagopal, U A]]
+[[Category: Ghosh S]]
-[[Category: Ramakumar, S]]
+[[Category: Nagaraja V]]
-[[Category: Dimerization by four helix bundle interaction]]
+[[Category: Ramagopal UA]]
-[[Category: Dna binding protein]]
+[[Category: Ramakumar S]]
-[[Category: Dna condensation]]
-[[Category: Dna-binding]]

4pt4

From Proteopedia

Current revision

Crystal structure Analysis of N terminal region containing the dimerization domain and DNA binding domain of HU protein(Histone like protein-DNA binding) from Mycobacterium tuberculosis [H37Rv]

Structural highlights

Function

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

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