2pmu

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(New page: 200px<br /><applet load="2pmu" size="350" color="white" frame="true" align="right" spinBox="true" caption="2pmu, resolution 1.779&Aring;" /> '''Crystal structure o...)
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[[Image:2pmu.jpg|left|200px]]<br /><applet load="2pmu" size="350" color="white" frame="true" align="right" spinBox="true"
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[[Image:2pmu.jpg|left|200px]]
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caption="2pmu, resolution 1.779&Aring;" />
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'''Crystal structure of the DNA-binding domain of PhoP'''<br />
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{{Structure
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|PDB= 2pmu |SIZE=350|CAPTION= <scene name='initialview01'>2pmu</scene>, resolution 1.779&Aring;
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|SITE= <scene name='pdbsite=AC1:Po4+Binding+Site+For+Residue+D+1001'>AC1</scene>, <scene name='pdbsite=AC2:Po4+Binding+Site+For+Residue+D+1002'>AC2</scene>, <scene name='pdbsite=AC3:Po4+Binding+Site+For+Residue+E+1003'>AC3</scene>, <scene name='pdbsite=AC4:Po4+Binding+Site+For+Residue+A+1004'>AC4</scene>, <scene name='pdbsite=AC5:K+Binding+Site+For+Residue+D+2001'>AC5</scene>, <scene name='pdbsite=AC6:K+Binding+Site+For+Residue+A+2002'>AC6</scene>, <scene name='pdbsite=AC7:K+Binding+Site+For+Residue+E+2003'>AC7</scene>, <scene name='pdbsite=AC8:Cl+Binding+Site+For+Residue+E+3001'>AC8</scene>, <scene name='pdbsite=AC9:Cl+Binding+Site+For+Residue+D+3004'>AC9</scene>, <scene name='pdbsite=BC1:GLY+Binding+Site+For+Residue+B+4001'>BC1</scene>, <scene name='pdbsite=BC2:GLY+Binding+Site+For+Residue+B+4002'>BC2</scene>, <scene name='pdbsite=BC3:GLY+Binding+Site+For+Residue+B+4003'>BC3</scene>, <scene name='pdbsite=BC4:Unx+Binding+Site+For+Residue+E+5001'>BC4</scene>, <scene name='pdbsite=BC5:Unx+Binding+Site+For+Residue+B+5002'>BC5</scene>, <scene name='pdbsite=BC6:Unx+Binding+Site+For+Residue+D+6001'>BC6</scene> and <scene name='pdbsite=BC7:Unx+Binding+Site+For+Residue+A+6002'>BC7</scene>
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|LIGAND= <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=K:POTASSIUM+ION'>K</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=UNX:UNKNOWN+ATOM+OR+ION'>UNX</scene> and <scene name='pdbligand=GLY:GLYCINE'>GLY</scene>
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|ACTIVITY=
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|GENE= PhoP ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1773 Mycobacterium tuberculosis])
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}}
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'''Crystal structure of the DNA-binding domain of PhoP'''
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==Overview==
==Overview==
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==About this Structure==
==About this Structure==
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2PMU is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis] with <scene name='pdbligand=PO4:'>PO4</scene>, <scene name='pdbligand=K:'>K</scene>, <scene name='pdbligand=CL:'>CL</scene>, <scene name='pdbligand=UNX:'>UNX</scene> and <scene name='pdbligand=GLY:'>GLY</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Known structural/functional Sites: <scene name='pdbsite=AC1:Po4+Binding+Site+For+Residue+D+1001'>AC1</scene>, <scene name='pdbsite=AC2:Po4+Binding+Site+For+Residue+D+1002'>AC2</scene>, <scene name='pdbsite=AC3:Po4+Binding+Site+For+Residue+E+1003'>AC3</scene>, <scene name='pdbsite=AC4:Po4+Binding+Site+For+Residue+A+1004'>AC4</scene>, <scene name='pdbsite=AC5:K+Binding+Site+For+Residue+D+2001'>AC5</scene>, <scene name='pdbsite=AC6:K+Binding+Site+For+Residue+A+2002'>AC6</scene>, <scene name='pdbsite=AC7:K+Binding+Site+For+Residue+E+2003'>AC7</scene>, <scene name='pdbsite=AC8:Cl+Binding+Site+For+Residue+E+3001'>AC8</scene>, <scene name='pdbsite=AC9:Cl+Binding+Site+For+Residue+D+3004'>AC9</scene>, <scene name='pdbsite=BC1:GLY+Binding+Site+For+Residue+B+4001'>BC1</scene>, <scene name='pdbsite=BC2:GLY+Binding+Site+For+Residue+B+4002'>BC2</scene>, <scene name='pdbsite=BC3:GLY+Binding+Site+For+Residue+B+4003'>BC3</scene>, <scene name='pdbsite=BC4:Unx+Binding+Site+For+Residue+E+5001'>BC4</scene>, <scene name='pdbsite=BC5:Unx+Binding+Site+For+Residue+B+5002'>BC5</scene>, <scene name='pdbsite=BC6:Unx+Binding+Site+For+Residue+D+6001'>BC6</scene> and <scene name='pdbsite=BC7:Unx+Binding+Site+For+Residue+A+6002'>BC7</scene>. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PMU OCA].
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2PMU is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PMU OCA].
==Reference==
==Reference==
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Structure of the DNA-binding domain of the response regulator PhoP from Mycobacterium tuberculosis., Wang S, Engohang-Ndong J, Smith I, Biochemistry. 2007 Dec 25;46(51):14751-61. Epub 2007 Dec 1. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=18052041 18052041]
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Structure of the DNA-binding domain of the response regulator PhoP from Mycobacterium tuberculosis., Wang S, Engohang-Ndong J, Smith I, Biochemistry. 2007 Dec 25;46(51):14751-61. Epub 2007 Dec 1. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18052041 18052041]
[[Category: Mycobacterium tuberculosis]]
[[Category: Mycobacterium tuberculosis]]
[[Category: Single protein]]
[[Category: Single protein]]
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[[Category: winged helix-tun-helx]]
[[Category: winged helix-tun-helx]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 27 07:58:36 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 18:14:59 2008''

Revision as of 16:15, 20 March 2008

Image:2pmu.jpg


PDB ID 2pmu

Drag the structure with the mouse to rotate
, resolution 1.779Å
Sites: , , , , , , , , , , , , , , and
Ligands: , , , and
Gene: PhoP (Mycobacterium tuberculosis)
Coordinates: save as pdb, mmCIF, xml



Crystal structure of the DNA-binding domain of PhoP


Overview

The PhoP-PhoR two-component signaling system from Mycobacterium tuberculosis is essential for the virulence of the tubercle bacillus. The response regulator, PhoP, regulates expression of over 110 genes. In order to elucidate the regulatory mechanism of PhoP, we determined the crystal structure of its DNA-binding domain (PhoPC). PhoPC exhibits a typical fold of the winged helix-turn-helix subfamily of response regulators. The structure starts with a four-stranded antiparallel beta-sheet, followed by a three-helical bundle of alpha-helices, and then a C-terminal beta-hairpin, which together with a short beta-strand between the first and second helices forms a three-stranded antiparallel beta-sheet. Structural elements are packed through a hydrophobic core, with the first helix providing a scaffold for the rest of the domain to pack. The second and third helices and the long, flexible loop between them form the helix-turn-helix motif, with the third helix being the recognition helix. The C-terminal beta-hairpin turn forms the wing motif. The molecular surfaces around the recognition helix and the wing residues show strong positive electrostatic potential, consistent with their roles in DNA binding and nucleotide sequence recognition. The crystal packing of PhoPC gives a hexamer ring, with neighboring molecules interacting in a head-to-tail fashion. This packing interface suggests that PhoPC could bind DNA in a tandem association. However, this mode of DNA binding is likely to be nonspecific because the recognition helix is partially blocked and would be prevented from inserting into the major groove of DNA. Detailed structural analysis and implications with respect to DNA binding are discussed.

About this Structure

2PMU is a Single protein structure of sequence from Mycobacterium tuberculosis. Full crystallographic information is available from OCA.

Reference

Structure of the DNA-binding domain of the response regulator PhoP from Mycobacterium tuberculosis., Wang S, Engohang-Ndong J, Smith I, Biochemistry. 2007 Dec 25;46(51):14751-61. Epub 2007 Dec 1. PMID:18052041

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