1iow
From Proteopedia
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|PDB= 1iow |SIZE=350|CAPTION= <scene name='initialview01'>1iow</scene>, resolution 1.9Å | |PDB= 1iow |SIZE=350|CAPTION= <scene name='initialview01'>1iow</scene>, resolution 1.9Å | ||
|SITE= <scene name='pdbsite=ADP:Adp+Binding+Site'>ADP</scene> and <scene name='pdbsite=LIG:Ligand+Binding+Site'>LIG</scene> | |SITE= <scene name='pdbsite=ADP:Adp+Binding+Site'>ADP</scene> and <scene name='pdbsite=LIG:Ligand+Binding+Site'>LIG</scene> | ||
| - | |LIGAND= <scene name='pdbligand= | + | |LIGAND= <scene name='pdbligand=ADP:ADENOSINE-5'-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PHY:1(S)-AMINOETHYL-(2-CARBOXYPROPYL)PHOSPHORYL-PHOSPHINIC+ACID'>PHY</scene> |
| - | |ACTIVITY= [http://en.wikipedia.org/wiki/D-alanine--D-alanine_ligase D-alanine--D-alanine ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.2.4 6.3.2.4] | + | |ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/D-alanine--D-alanine_ligase D-alanine--D-alanine ligase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=6.3.2.4 6.3.2.4] </span> |
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY= | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1iow FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1iow OCA], [http://www.ebi.ac.uk/pdbsum/1iow PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1iow RCSB]</span> | ||
}} | }} | ||
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[[Category: Knox, J R.]] | [[Category: Knox, J R.]] | ||
[[Category: Moews, P C.]] | [[Category: Moews, P C.]] | ||
| - | [[Category: ADP]] | ||
| - | [[Category: MG]] | ||
| - | [[Category: PHY]] | ||
[[Category: adp binding]] | [[Category: adp binding]] | ||
[[Category: cell wall]] | [[Category: cell wall]] | ||
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[[Category: vancomycin]] | [[Category: vancomycin]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 21:22:40 2008'' |
Revision as of 18:22, 30 March 2008
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| , resolution 1.9Å | |||||||
|---|---|---|---|---|---|---|---|
| Sites: | and | ||||||
| Ligands: | , , | ||||||
| Activity: | D-alanine--D-alanine ligase, with EC number 6.3.2.4 | ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
COMPLEX OF Y216F D-ALA:D-ALA LIGASE WITH ADP AND A PHOSPHORYL PHOSPHINATE
Overview
The crystallographic structure of the D-alanine:D-alanine ligase of the ddlB gene of Escherichia coli complexed with a D-Ala-D-alpha-hydroxybutyrate phosphonate and the structure of the Y216F mutant ligase complexed with a D-Ala-D-Ala phosphinate have been determined to 2.2 and 1.9 A resolution, respectively, and refined to R factors of 0.156 and 0.158. In each complex the inhibitor has reacted with ATP to produce ADP and a tight-binding phosphorylated transition state intermediate. Comparison of these two structures with the known crystal structure of the phosphinate intermediate of the wild-type ligase shows no major conformational changes, but B factors indicate differences in mobility of loops covering the binding site. The weaker inhibition of the Y216F mutant by both inhibitors is thought to be due in part to the loss of an interloop hydrogen bond. A similar mechanism may account for poor inhibition of VanA, the homologous D-Ala:D-lactate ligase produced by vancomycin-resistant enterococci.
About this Structure
1IOW is a Single protein structure of sequence from Escherichia coli. Full crystallographic information is available from OCA.
Reference
D-alanine:D-alanine ligase: phosphonate and phosphinate intermediates with wild type and the Y216F mutant., Fan C, Park IS, Walsh CT, Knox JR, Biochemistry. 1997 Mar 4;36(9):2531-8. PMID:9054558
Page seeded by OCA on Sun Mar 30 21:22:40 2008
