2uzh: Difference between revisions
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==About this Structure== | ==About this Structure== | ||
2UZH is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Mycobacterium_smegmatis Mycobacterium smegmatis] with <scene name='pdbligand=ZN:'>ZN</scene>, <scene name='pdbligand=ACT:'>ACT</scene>, <scene name='pdbligand=CDF:'>CDF</scene>, <scene name='pdbligand=EDO:'>EDO</scene>, <scene name='pdbligand=IPE:'>IPE</scene>, <scene name='pdbligand=GOL:'>GOL</scene> and <scene name='pdbligand=PEG:'>PEG</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/2-C-methyl-D-erythritol_2,4-cyclodiphosphate_synthase 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.6.1.12 4.6.1.12] Known structural/functional Sites: <scene name='pdbsite=AC1:Zn Binding Site For Chain A'>AC1</scene>, <scene name='pdbsite=AC2:Cdf Binding Site For Chain A'>AC2</scene>, <scene name='pdbsite=AC3:Zn Binding Site For Chain B'>AC3</scene>, <scene name='pdbsite=AC4:Cdf Binding Site For Chain B'>AC4</scene>, <scene name='pdbsite=AC5:Zn Binding Site For Chain C'>AC5</scene>, <scene name='pdbsite=AC6:Cdf Binding Site For Chain C'>AC6</scene>, <scene name='pdbsite=AC7:Edo Binding Site For Chain C'>AC7</scene>, <scene name='pdbsite=AC8:Edo Binding Site For Chain A'>AC8</scene>, <scene name='pdbsite=AC9:Ipe Binding Site For Chain B'>AC9</scene>, <scene name='pdbsite=BC1:Gol Binding Site For Chain C'>BC1</scene>, <scene name='pdbsite=BC2:Gol Binding Site For Chain A'>BC2</scene>, <scene name='pdbsite=BC3:Gol Binding Site For Chain B'>BC3</scene>, <scene name='pdbsite=BC4:Act Binding Site For Chain C'>BC4</scene>, <scene name='pdbsite=BC5:Peg Binding Site For Chain B'>BC5</scene> and <scene name='pdbsite=BC6:Peg Binding Site For Chain B'>BC6</scene>. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2UZH OCA]. | 2UZH is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Mycobacterium_smegmatis Mycobacterium smegmatis] with <scene name='pdbligand=ZN:'>ZN</scene>, <scene name='pdbligand=ACT:'>ACT</scene>, <scene name='pdbligand=CDF:'>CDF</scene>, <scene name='pdbligand=EDO:'>EDO</scene>, <scene name='pdbligand=IPE:'>IPE</scene>, <scene name='pdbligand=GOL:'>GOL</scene> and <scene name='pdbligand=PEG:'>PEG</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/2-C-methyl-D-erythritol_2,4-cyclodiphosphate_synthase 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=4.6.1.12 4.6.1.12] Known structural/functional Sites: <scene name='pdbsite=AC1:Zn+Binding+Site+For+Chain+A'>AC1</scene>, <scene name='pdbsite=AC2:Cdf+Binding+Site+For+Chain+A'>AC2</scene>, <scene name='pdbsite=AC3:Zn+Binding+Site+For+Chain+B'>AC3</scene>, <scene name='pdbsite=AC4:Cdf+Binding+Site+For+Chain+B'>AC4</scene>, <scene name='pdbsite=AC5:Zn+Binding+Site+For+Chain+C'>AC5</scene>, <scene name='pdbsite=AC6:Cdf+Binding+Site+For+Chain+C'>AC6</scene>, <scene name='pdbsite=AC7:Edo+Binding+Site+For+Chain+C'>AC7</scene>, <scene name='pdbsite=AC8:Edo+Binding+Site+For+Chain+A'>AC8</scene>, <scene name='pdbsite=AC9:Ipe+Binding+Site+For+Chain+B'>AC9</scene>, <scene name='pdbsite=BC1:Gol+Binding+Site+For+Chain+C'>BC1</scene>, <scene name='pdbsite=BC2:Gol+Binding+Site+For+Chain+A'>BC2</scene>, <scene name='pdbsite=BC3:Gol+Binding+Site+For+Chain+B'>BC3</scene>, <scene name='pdbsite=BC4:Act+Binding+Site+For+Chain+C'>BC4</scene>, <scene name='pdbsite=BC5:Peg+Binding+Site+For+Chain+B'>BC5</scene> and <scene name='pdbsite=BC6:Peg+Binding+Site+For+Chain+B'>BC6</scene>. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2UZH OCA]. | ||
==Reference== | ==Reference== | ||
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[[Category: non-mevalonate pathway of isoprenoid biosynthesis]] | [[Category: non-mevalonate pathway of isoprenoid biosynthesis]] | ||
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Feb 3 10:48:43 2008'' | ||
Revision as of 11:48, 3 February 2008
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MYCOBACTERIUM SMEGMATIS 2C-METHYL-D-ERYTHRITOL-2,4-CYCLODIPHOSPHATE SYNTHASE (ISPF)
OverviewOverview
ABSTRACT: BACKGROUND: The prevalence of tuberculosis, the prolonged and, expensive treatment that this disease requires and an increase in drug, resistance indicate an urgent need for new treatments. The, 1-deoxy-D-xylulose 5-phosphate pathway of isoprenoid precursor, biosynthesis is an attractive chemotherapeutic target because it occurs in, many pathogens, including Mycobacterium tuberculosis, and is absent from, humans. To underpin future drug development it is important to assess, which enzymes in this biosynthetic pathway are essential in the actual, pathogens and to characterize them. RESULTS: The fifth enzyme of this, pathway, encoded by ispF, is 2C-methyl-D-erythritol-2,4-cyclodiphosphate, synthase (IspF). A two-step recombination strategy was used to construct, ispF deletion mutants in M. tuberculosis but only wild-type double, crossover strains were isolated. The chromosomal copy could be deleted, when a second functional copy was provided on an integrating plasmid, demonstrating that ispF is an essential gene under the conditions tested, thereby confirming its potential as a drug target. We attempted structure, determination of the M. tuberculosis enzyme (MtIspF), but failed to obtain, crystals. We instead analyzed the orthologue M. smegmatis IspF (MsIspF), sharing 73% amino acid sequence identity, at 2.2 A resolution. The high, level of sequence conservation is particularly pronounced in and around, the active site. MsIspF is a trimer with a hydrophobic cavity at its, center that contains density consistent with diphosphate-containing, isoprenoids. The active site, created by two subunits, comprises a rigid, CDP-Zn2+ binding pocket with a flexible loop to position the, 2C-methyl-D-erythritol moiety of substrate. Sequence-structure comparisons, indicate that the active site and interactions with ligands are highly, conserved. CONCLUSIONS: Our study genetically validates MtIspF as a, therapeutic target and provides a model system for structure-based ligand, design.
About this StructureAbout this Structure
2UZH is a Single protein structure of sequence from Mycobacterium smegmatis with , , , , , and as ligands. Active as 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase, with EC number 4.6.1.12 Known structural/functional Sites: , , , , , , , , , , , , , and . Full crystallographic information is available from OCA.
ReferenceReference
The structure of Mycobacteria 2C-methyl-D-erythritol-2,4-cyclodiphosphate synthase, an essential enzyme, provides a platform for drug discovery., Buetow L, Brown AC, Parish T, Hunter WN, BMC Struct Biol. 2007 Oct 23;7(1):68. PMID:17956607
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