ISDA

Deposition Date 2011-10-12

Release Date 2012-02-08

Last Version Date 2023-11-15

Entry Detail

PDB ID:

3U6K

Keywords:

translation factor/antibiotic

Title:

Ef-tu (escherichia coli) in complex with nvp-ldk733

Biological Source:

Source Organism:

Escherichia coli (Taxon ID: 83333)

Host Organism:

Escherichia coli

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

2.45 Å

R-Value Free:

0.29

R-Value Work:

0.22

R-Value Observed:

0.22

Space Group:

P 21 21 21

Download Validation Report

Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Elongation factor Tu 1
Gene (Uniprot):tufA
Chain IDs:A, B
Chain Length:394
Number of Molecules:2
Biological Source:Escherichia coli

UniProt ID:P0CE47 Pfam ID:PF00009, PF03144, PF03143 EC:3.6.5.3

Modified Residue

Compound ID	Chain ID	Parent Comp ID	Details
BB6	C	CYS	(2Z)-2-AMINO-3-SULFANYLBUT-2-ENOIC ACID
BB7	C	CYS	?
BB8	C	PHE	(2S,3S)-BETA-HYDROXY-PHENYLALANINE
BB9	C	CYS	?
MEN	C	ASN	N-METHYL ASPARAGINE
MH6	C	SER	3-HYDROXY-2-IMINOPROPANOIC ACID

Ligand Molecules

GDP

Peptide-like Molecules

PRD_001073

Primary Citation

Antibacterial optimization of 4-aminothiazolyl analogues of the natural product GE2270 A: identification of the cycloalkylcarboxylic acids.

LaMarche, M.J, Leeds, J.A, Amaral, K, Brewer, J.T, Bushell, S.M, Dewhurst, J.M, Dzink-Fox, J, Gangl, E, Goldovitz, J, Jain, A, Mullin, S, Neckermann, G, Osborne, C, Palestrant, D, Patane, M.A, Rann, E.M, Sachdeva, M, Shao, J, Tiamfook, S, Whitehead, L, Yu, D.Show

J.Med.Chem. 54 8099 8109 (2011)

PMID: 21999529 DOI: 10.1021/jm200938f

Abstact

4-Aminothiazolyl analogues of the antibiotic natural product GE2270 A (1) were designed, synthesized, and optimized for their activity against Gram positive bacterial infections. Optimization efforts focused on improving the physicochemical properties (e.g., aqueous solubility and chemical stability) of the 4-aminothiazolyl natural product template while improving the in vitro and in vivo antibacterial activity. Structure-activity relationships were defined, and the solubility and efficacy profiles were improved over those of previous analogues and 1. These studies identified novel, potent, soluble, and efficacious elongation factor-Tu inhibitors, which bear cycloalkylcarboxylic acid side chains, and culminated in the selection of development candidates amide 48 and urethane 58.

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Primary Citation of related structures