title: The nucleotide sequence of a transposable haloalkanoic acid dehalogenase regulatory gene (dehRI) from Pseudomonas putida strain PP3 and its relationship with sigma 54-dependent activators.
abstract: The mobile genetic element, DEH found in Pseudomonas putida PP3 carries a 2-haloalkanoic acid dehalogenase structural gene, dehI, and its associated regulatory gene, dehRI. The nucleotide sequence of dehRI was determined. The gene had an open reading frame putatively encoding for a 64 kDa protein containing 571 amino acid residues. The protein was similar to previously published sequences of several other sigma 54-dependent activator proteins. Amino acid sequence analysis showed that the deduced DehRI protein clustered with the NifA nitrogenase regulatory activator family, and was most closely related, with 47.7% similarity, to a 'NifA-like' deduced partial sequence from a plasmid-encoded ORF in Pseudomonas sp. strain NS671, associated with L-amino acid production. The domain structure of DehRI was analysed by alignment with other NifA-like and NtrC-like sequences and showed a highly conserved central region of approximately 230 amino acids, and a potential DNA-binding domain. No homology was detected between the deduced DehRI and other sigma 54-dependent activator sequences at the N-terminus, a result which was consistent with that region being the domain which recognised inducer.
authors.affiliation: Zeneca BioProducts, Billingham, Cleveland, England, UK.
authors.forename: A W
authors.initials: AW
authors.lastname: Topping
authors.forename: A W
authors.initials: AW
authors.lastname: Thomas
authors.forename: J H
authors.initials: JH
authors.lastname: Slater
authors.forename: A J
authors.initials: AJ
authors.lastname: Weightman
mesh_terms: D000595:Amino Acid Sequence; D001426:Bacterial Proteins; D001483:Base Sequence; D004251:DNA Transposable Elements; D004268:DNA-Binding Proteins; D012321:DNA-Directed RNA Polymerases / Q000737:chemistry; D015964:Gene Expression Regulation, Bacterial; D005798:Genes, Bacterial; D005809:Genes, Regulator; D006867:Hydrolases / Q000235:genetics*; D008969:Molecular Sequence Data; D016366:Open Reading Frames; D016958:Pseudomonas putida / Q000201:enzymology* / Q000235:genetics*; D051877:RNA Polymerase Sigma 54; D016415:Sequence Alignment; D017422:Sequence Analysis, DNA; D017386:Sequence Homology, Amino Acid; D012808:Sigma Factor / Q000737:chemistry; D014157:Transcription Factors / Q000737:chemistry / Q000235:genetics*
chemical_list: D001426:Bacterial Proteins; D004251:DNA Transposable Elements; D004268:DNA-Binding Proteins; C096288:DehRI protein, Pseudomonas putida; D012808:Sigma Factor; D014157:Transcription Factors; D012321:DNA-Directed RNA Polymerases; D051877:RNA Polymerase Sigma 54; D006867:Hydrolases; C034507:2-haloacid dehalogenase