2bpq: Difference between revisions

Revision as of 17:40, 21 February 2008

ANTHRANILATE PHOSPHORIBOSYLTRANSFERASE (TRPD) FROM MYCOBACTERIUM TUBERCULOSIS (APO STRUCTURE)

OverviewOverview

Mycobacterium tuberculosis, the cause of tuberculosis, presents a major threat to human health worldwide. Biosynthetic enzymes that are essential for the survival of the bacterium, especially in activated macrophages, are important potential drug targets. Although the tryptophan biosynthesis pathway is thought to be non-essential for many pathogens, this appears not to be the case for M.tuberculosis, where a trpD gene knockout fails to cause disease in mice. We therefore chose the product of the trpD gene, anthranilate phosphoribosyltransferase, which catalyses the second step in tryptophan biosynthesis, for structural analysis. The structure of TrpD from M.tuberculosis was solved by X-ray crystallography, at 1.9 A resolution for the native enzyme (R = 0.191, Rfree = 0.230) and at 2.3 A resolution for the complex with its substrate phosphoribosylpyrophosphate (PRPP) and Mg2+ (R = 0.194, Rfree = 0.255). The enzyme is folded into two domains, separated by a hinge region. PRPP binds in the C-terminal domain, together with a pair of Mg ions. In the substrate complex, two flexible loops change conformation compared with the apo protein, to close over the PRPP and to complete an extensive network of hydrogen-bonded interactions. A nearby pocket, adjacent to the hinge region, is postulated by in silico docking as the binding site for anthranilate. A bound molecule of benzamidine, which was essential for crystallization and is also found in the hinge region, appears to reduce flexibility between the two domains.

About this StructureAbout this Structure

2BPQ is a Single protein structure of sequence from Mycobacterium tuberculosis with and as ligands. Active as Anthranilate phosphoribosyltransferase, with EC number 2.4.2.18 Known structural/functional Site: . Full crystallographic information is available from OCA.

ReferenceReference

The crystal structure of TrpD, a metabolic enzyme essential for lung colonization by Mycobacterium tuberculosis, in complex with its substrate phosphoribosylpyrophosphate., Lee CE, Goodfellow C, Javid-Majd F, Baker EN, Shaun Lott J, J Mol Biol. 2006 Jan 27;355(4):784-97. Epub 2005 Nov 22. PMID:16337227

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 ==Overview==
-Mycobacterium tuberculosis, the cause of tuberculosis, presents a major, threat to human health worldwide. Biosynthetic enzymes that are essential, for the survival of the bacterium, especially in activated macrophages, are important potential drug targets. Although the tryptophan biosynthesis, pathway is thought to be non-essential for many pathogens, this appears, not to be the case for M.tuberculosis, where a trpD gene knockout fails to, cause disease in mice. We therefore chose the product of the trpD gene, anthranilate phosphoribosyltransferase, which catalyses the second step in, tryptophan biosynthesis, for structural analysis. The structure of TrpD, from M.tuberculosis was solved by X-ray crystallography, at 1.9 A, resolution for the native enzyme (R = 0.191, Rfree = 0.230) and at 2.3 A, resolution for the complex with its substrate phosphoribosylpyrophosphate, (PRPP) and Mg2+ (R = 0.194, Rfree = 0.255). The enzyme is folded into two, domains, separated by a hinge region. PRPP binds in the C-terminal domain, together with a pair of Mg ions. In the substrate complex, two flexible, loops change conformation compared with the apo protein, to close over the, PRPP and to complete an extensive network of hydrogen-bonded interactions., A nearby pocket, adjacent to the hinge region, is postulated by in silico, docking as the binding site for anthranilate. A bound molecule of, benzamidine, which was essential for crystallization and is also found in, the hinge region, appears to reduce flexibility between the two domains.
+Mycobacterium tuberculosis, the cause of tuberculosis, presents a major threat to human health worldwide. Biosynthetic enzymes that are essential for the survival of the bacterium, especially in activated macrophages, are important potential drug targets. Although the tryptophan biosynthesis pathway is thought to be non-essential for many pathogens, this appears not to be the case for M.tuberculosis, where a trpD gene knockout fails to cause disease in mice. We therefore chose the product of the trpD gene, anthranilate phosphoribosyltransferase, which catalyses the second step in tryptophan biosynthesis, for structural analysis. The structure of TrpD from M.tuberculosis was solved by X-ray crystallography, at 1.9 A resolution for the native enzyme (R = 0.191, Rfree = 0.230) and at 2.3 A resolution for the complex with its substrate phosphoribosylpyrophosphate (PRPP) and Mg2+ (R = 0.194, Rfree = 0.255). The enzyme is folded into two domains, separated by a hinge region. PRPP binds in the C-terminal domain, together with a pair of Mg ions. In the substrate complex, two flexible loops change conformation compared with the apo protein, to close over the PRPP and to complete an extensive network of hydrogen-bonded interactions. A nearby pocket, adjacent to the hinge region, is postulated by in silico docking as the binding site for anthranilate. A bound molecule of benzamidine, which was essential for crystallization and is also found in the hinge region, appears to reduce flexibility between the two domains.
 ==About this Structure==
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 [[Category: Mycobacterium tuberculosis]]
 [[Category: Single protein]]
-[[Category: Baker, E.N.]]
+[[Category: Baker, E N.]]
 [[Category: Goodfellow, C.]]
 [[Category: Javid-Majd, F.]]
-[[Category: Lee, C.E.]]
+[[Category: Lee, C E.]]
-[[Category: Lott, J.S.]]
+[[Category: Lott, J S.]]
-[[Category: TBSGC, TB.Structural.Genomics.Consortium.]]
+[[Category: TBSGC, TB Structural Genomics Consortium.]]
 [[Category: BEN]]
 [[Category: GOL]]
@@ Line 34: / Line 34: @@
 [[Category: tryptophan biosynthesis]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Feb  3 10:26:42 2008''
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 16:40:17 2008''