ycxD

ycxD
168

similar to transcriptional regulator (MocR/ GabR family)

Locus
BSU_03560
Molecular weight
50.59 kDa
Isoelectric point
8.57
Protein length
444 aaSequenceBlast
Gene length
1335 bpSequenceBlast
Function
unknown
Product
unknown
Essential
no
Synonyms
ycxD
Outlinks
BsubCyc SubtiList UniProt STRING Genoscapist PaperBLAST

Genomic Context

List of homologs in different organisms, belongs to COG1167 (Galperin et al., 2021)

This gene is a member of the following regulons

Gene
Coordinates
406,131  407,465
The protein
Protein family
MocR/ GabR family PubMed
class-I pyridoxal-phosphate-dependent aminotransferase family (according to UniProt)
Domains
N-terminal DNA-binding helix-turn-helix motif; C-terminal domain is homologous to PLP-binding large domain of aminotransferases.
HTH gntR-type domain (aa 1-69) (according to UniProt)
Cofactors
PLP
Structure
4MGR (PDB) (GabR, 27% identity) PubMed
Q08792 (AlphaFold)
Biological materials
Mutant
BKE03560 (ycxD::erm  trpC2) available at BGSC,  PubMed, upstream reverse: _UP1_CATGCCTTCTCCCCCTGTTT,  downstream forward: _UP4_GGTGTCAAGCTGTTGATGAG
BKK03560 (ycxD::kan  trpC2) available at BGSC,  PubMed, upstream reverse: _UP1_CATGCCTTCTCCCCCTGTTT,  downstream forward: _UP4_GGTGTCAAGCTGTTGATGAG
Expression vectors
pGP3930 (N-terminal Strep-tag, purification from E. coli, in pGP172), available in Jörg Stülke's lab
References
Edayathumangalam R, Wu R, Garcia R, Wang Y, Wang W, Kreinbring CA, Bach A, Liao J, Stone TA, Terwilliger TC, Hoang QQ, Belitsky BR, Petsko GA, Ringe D, Liu D Crystal structure of Bacillus subtilis GabR, an autorepressor and transcriptional activator of gabT. Proceedings of the National Academy of Sciences of the United States of America. 2013 Oct 29; 110(44):17820-5. doi:10.1073/pnas.1315887110. PMID:24127574
Bramucci E, Milano T, Pascarella S Genomic distribution and heterogeneity of MocR-like transcriptional factors containing a domain belonging to the superfamily of the pyridoxal-5'-phosphate dependent enzymes of fold type I. Biochemical and biophysical research communications. 2011 Nov 11; 415(1):88-93. doi:10.1016/j.bbrc.2011.10.017. PMID:22020104
Rigali S, Derouaux A, Giannotta F, Dusart J Subdivision of the helix-turn-helix GntR family of bacterial regulators in the FadR, HutC, MocR, and YtrA subfamilies. The Journal of biological chemistry. 2002 Apr 12; 277(15):12507-15. . PMID:11756427

3A756A845ADA88DA569FA9A1B484DA43A28C6F4D

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Time of last update: 2025-04-10 16:04:56

Author of last update: Dennis.wicke