1nce: Difference between revisions
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'''Crystal structure of a ternary complex of E. coli thymidylate synthase D169C with dUMP and the antifolate CB3717''' | {{Structure | ||
|PDB= 1nce |SIZE=350|CAPTION= <scene name='initialview01'>1nce</scene>, resolution 2.40Å | |||
|SITE= | |||
|LIGAND= <scene name='pdbligand=UMP:2'-DEOXYURIDINE+5'-MONOPHOSPHATE'>UMP</scene> and <scene name='pdbligand=CB3:10-PROPARGYL-5,8-DIDEAZAFOLIC ACID'>CB3</scene> | |||
|ACTIVITY= [http://en.wikipedia.org/wiki/Thymidylate_synthase Thymidylate synthase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.45 2.1.1.45] | |||
|GENE= THYA OR B2827 OR Z4144 OR ECS3684 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id= Escherichia coli, and Escherichia coli O157:H7]) | |||
}} | |||
'''Crystal structure of a ternary complex of E. coli thymidylate synthase D169C with dUMP and the antifolate CB3717''' | |||
==Overview== | ==Overview== | ||
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==About this Structure== | ==About this Structure== | ||
1NCE is a [ | 1NCE is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Escherichia_coli,_and_escherichia_coli_o157:h7 Escherichia coli, and escherichia coli o157:h7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NCE OCA]. | ||
==Reference== | ==Reference== | ||
The only active mutant of thymidylate synthase D169, a residue far from the site of methyl transfer, demonstrates the exquisite nature of enzyme specificity., Birdsall DL, Finer-Moore J, Stroud RM, Protein Eng. 2003 Mar;16(3):229-40. PMID:[http:// | The only active mutant of thymidylate synthase D169, a residue far from the site of methyl transfer, demonstrates the exquisite nature of enzyme specificity., Birdsall DL, Finer-Moore J, Stroud RM, Protein Eng. 2003 Mar;16(3):229-40. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12702803 12702803] | ||
[[Category: Escherichia coli, and escherichia coli o157:h7]] | [[Category: Escherichia coli, and escherichia coli o157:h7]] | ||
[[Category: Single protein]] | [[Category: Single protein]] | ||
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[[Category: protein-dump-cofactor analog complex]] | [[Category: protein-dump-cofactor analog complex]] | ||
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 12:55:07 2008'' | ||
Revision as of 13:55, 20 March 2008
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| , resolution 2.40Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | and | ||||||
| Gene: | THYA OR B2827 OR Z4144 OR ECS3684 (Escherichia coli, and Escherichia coli O157:H7) | ||||||
| Activity: | Thymidylate synthase, with EC number 2.1.1.45 | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Crystal structure of a ternary complex of E. coli thymidylate synthase D169C with dUMP and the antifolate CB3717
OverviewOverview
Cysteine is the only variant of D169, a cofactor-binding residue in thymidylate synthase, that shows in vivo activity. The 2.4 A crystal structure of Escherichia coli thymidylate synthase D169C in a complex with dUMP and the antifolate CB3717 shows it to be an asymmetric dimer, with only one active site covalently bonded to dUMP. At the active site with covalently bound substrate, C169 S gamma adopts the roles of both carboxyl oxygens of D169, making a 3.6 A S...H[bond]N hydrogen bond to 3-NH of CB3717 and a 3.4 A water-mediated hydrogen bond to H212. Analogous hydrogen bonds formed during the enzyme reaction are important for cofactor binding and are postulated to contribute to catalysis. The C169 side chain is likely to be ionized, making it a better hydrogen bond acceptor than a neutral sulfhydryl group. At the second active site, C169 S gamma makes a shorter (3 A) hydrogen bond to the 3-NH of CB3717, CB3717 is approximately 1.5 A out of its binding site and there is no covalent bond between dUMP and the catalytic cysteine. Changes to partitioning among productive and non-productive conformations of reaction intermediates may contribute as much, if not more, to the diminished activity of this mutant than reduced stabilization of transition states.
About this StructureAbout this Structure
1NCE is a Single protein structure of sequence from Escherichia coli, and escherichia coli o157:h7. Full crystallographic information is available from OCA.
ReferenceReference
The only active mutant of thymidylate synthase D169, a residue far from the site of methyl transfer, demonstrates the exquisite nature of enzyme specificity., Birdsall DL, Finer-Moore J, Stroud RM, Protein Eng. 2003 Mar;16(3):229-40. PMID:12702803
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