4B42

Pseudomonas aeruginosa RmlA in complex with allosteric inhibitor

Summary for 4B42

• Entry DOI: 10.2210/pdb4b42/pdb
• Related: 4ARW 4AS6 4ASJ 4ASP 4ASY 4B2W
• Descriptor: GLUCOSE-1-PHOSPHATE THYMIDYLYLTRANSFERASE, N-[6-azanyl-1-butyl-2,4-bis(oxidanylidene)pyrimidin-5-yl]-N-methyl-benzamide, CHLORIDE ION, ... (5 entities in total)
• Functional Keywords: transferase
• Biological source: PSEUDOMONAS AERUGINOSA
• Total number of polymer chains: 4
• Total formula weight: 136844.66

Authors

Alphey, M.S.,Pirrie, L.,Torrie, L.S.,Gardiner, M.,Sarkar, A.,Brenk, R.,Westwood, N.J.,Gray, D.,Naismith, J.H. (deposition date: 2012-07-27, release date: 2012-10-31, Last modification date: 2023-12-20)

Primary citation

Alphey, M.S.,Pirrie, L.,Torrie, L.S.,Boulkeroua, W.A.,Gardiner, M.,Sarkar, A.,Maringer, M.,Oehlmann, W.,Brenk, R.,Scherman, M.S.,McNeil, M.,Rejzek, M.,Field, R.A.,Singh, M.,Gray, D.,Westwood, N.J.,Naismith, J.H.
Allosteric competitive inhibitors of the glucose-1-phosphate thymidylyltransferase (RmlA) from Pseudomonas aeruginosa.
ACS Chem. Biol., 8:387-396, 2013

PubMed Abstract: Glucose-1-phosphate thymidylyltransferase (RmlA) catalyzes the condensation of glucose-1-phosphate (G1P) with deoxy-thymidine triphosphate (dTTP) to yield dTDP-d-glucose and pyrophosphate. This is the first step in the l-rhamnose biosynthetic pathway. l-Rhamnose is an important component of the cell wall of many microorganisms, including Mycobacterium tuberculosis and Pseudomonas aeruginosa. Here we describe the first nanomolar inhibitors of P. aeruginosa RmlA. These thymine analogues were identified by high-throughput screening and subsequently optimized by a combination of protein crystallography, in silico screening, and synthetic chemistry. Some of the inhibitors show inhibitory activity against M. tuberculosis. The inhibitors do not bind at the active site of RmlA but bind at a second site remote from the active site. Despite this, the compounds act as competitive inhibitors of G1P but with high cooperativity. This novel behavior was probed by structural analysis, which suggests that the inhibitors work by preventing RmlA from undergoing the conformational change key to its ordered bi-bi mechanism.

PubMed: 23138692
DOI: 10.1021/cb300426u

Experimental method

X-RAY DIFFRACTION (2.505 Å)