Protein Family Models

Date:

2024-08-14

This family includes helix-turn-helix domains in a wide variety of proteins. (from Pfam)

Date:

2024-08-14

This family of regulatory proteins consists of the N-terminal HTH region of GntR-like bacterial transcription factors. At the C-terminus there is usually an effector-binding/oligomerisation domain. The GntR-like proteins include the following sub-families: MocR, YtrR, FadR, AraR, HutC and PlmA, DevA, DasR [1-2][4][5]. Many of these proteins have been shown experimentally to be autoregulatory, enabling the prediction of operator sites and the discovery of cis/trans relationships [3]. The DasR regulator has been shown to be a global regulator of primary metabolism and development in Streptomyces coelicolor [5]. [1]. 12867439. PlmA, a new member of the GntR family, has plasmid maintenance functions in Anabaena sp. strain PCC 7120. Lee MH, Scherer M, Rigali S, Golden JW;. J Bacteriol 2003;185:4315-4325. [2]. 11756427. Subdivision of the helix-turn-helix GntR family of bacterial regulators in the FadR, HutC, MocR, and YtrA subfamilies. Rigali S, Derouaux A, Giannotta F, Dusart J;. J Biol Chem 2002;277:12507-12515. [3]. 15247334. Extending the classification of bacterial transcription factors beyond the helix-turn-helix motif as an alternative approach to discover new cis/trans relationships. Rigali S, Schlicht M, Hoskisson P, Nothaft H, Merzbacher M, Joris B, Titgemeyer F;. Nucleic Acids Res 2004;32:3418-3426. [4]. 16936034. A new GntR family transcriptional regulator in streptomyces coelicolor is required for morphogenesis and antibiotic production and controls transcription of an ABC transporter in response to carbon source. Hillerich B, Westpheling J;. J Bacteriol. 2006;188:7477-7487. [5]. 16925557. The sugar phosphotransfer. TRUNCATED at 1650 bytes (from Pfam)

Date:

2024-10-16

The sensor domains of the DeoR are catalytically inactive versions of the ISOCOT fold, but retain the substrate binding site [1]. DeorC senses diverse sugar derivatives such as deoxyribose nucleoside (DeoR), tagatose phosphate (LacR), galactosamine (AgaR), myo-inositol (Bacillus IolR) and L-ascorbate (UlaR) [1,2]. It can also bind L-ascorbate 6-phosphate, agrocinopines, sn-glycerol 3-phosphate, and sulfoquinovose (Matilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://doi.org/10.1093/femsre/fuab043). [1]. 16376935. Diversification of catalytic activities and ligand interactions in the protein fold shared by the sugar isomerases, eIF2B, DeoR transcription factors, acyl-CoA transferases and methenyltetrahydrofolate synthetase. Anantharaman V, Aravind L;. J Mol Biol. 2006;356:823-842. [2]. 18844374. Quaternary structural transitions in the DeoR-type repressor UlaR control transcriptional readout from the L-ascorbate utilization regulon in Escherichia coli. Garces F, Fernandez FJ, Gomez AM, Perez-Luque R, Campos E, Prohens R, Aguilar J, Baldoma L, Coll M, Badia J, Vega MC;. Biochemistry. 2008;47:11424-11433. (from Pfam)

Date:

2024-10-16

DeoR/GlpR family DNA-binding transcription regulator is a helix-turn-helix type transcriptional regulator that may be involved in sugar metabolism

Date:

2024-04-17