Local Gene Regulation Details a Recognition Code within the LacI Transcriptional Factor Family
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Summary
A set of specificity correlations is identified –determined by two AAs of the TFs and two NTs in the binding sites– that is conserved throughout a dominant subgroup within the family regardless of the evolutionary distance and act as a relatively consistent recognition code.
- Type
- article
- Published
- 2010-11-01
- Cited by
- 23
- References
- 57
- Access
- Open access
- OpenAlex
- https://openalex.org/W2011781913
- Semantic Scholar
- https://api.semanticscholar.org/CorpusID:6570112
Keywords
Phylogenetic tree, Biology, Genetics, Context (archaeology), Computational biology
References
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- Statistical analysis of the spatial distribution of operons in the transcriptional regulation network of Escherichia coli.
- Analysis of genomic context: prediction of functional associations from conserved bidirectionally transcribed gene pairs
- Structural basis for allosteric control of the transcription regulator CcpA by the phosphoprotein HPr-Ser46-P.
- Breaking the Code of DNA Binding Specificity of TAL-Type III Effectors
- Sequence correlations between Cro recognition helices and cognate O(R) consensus half-sites suggest conserved rules of protein-DNA recognition.
- Sequence-specific recognition of double helical nucleic acids by proteins.
- Applied bioinformatics for the identification of regulatory elements
- Physical basis of a protein-DNA recognition code.
- What Determines the Assembly of Transcriptional Network Motifs in Escherichia coli?
- Surface presentation of protein epitopes using bacteriophage expression systems.
- Zinc-finger-based artificial transcription factors and their applications.
- The lac repressor.
- Prediction of TF target sites based on atomistic models of protein-DNA complexes
- Crystal Structure of the Lactose Operon Repressor and Its Complexes with DNA and Inducer
Cited by
- On the search for design principles in biological systems.
- Evolutionary Systems Biology
- GntR Family of Bacterial Transcription Factors and Their DNA Binding Motifs: Structure, Positioning and Co-Evolution
- The linker sequence, joining the DNA‐binding domain of the homologous transcription factors, Mlc and NagC, to the rest of the protein, determines the specificity of their DNA target recognition in Escherichia coli
- IpsA, a novel LacI-type regulator, is required for inositol-derived lipid formation in Corynebacteria and Mycobacteria
- Evolution of transcriptional regulation in closely related bacteria
- Reengineering Cro protein functional specificity with an evolutionary code.
- Expanding the synthetic biology toolbox: engineering orthogonal regulators of gene expression.
- Comparative genomics and evolution of regulons of the LacI-family transcription factors
- Regulation of Streptococcus mutans PTSBio by the transcriptional repressor NigR
- The LacI-Type Transcriptional Regulator AraR Acts as an l-Arabinose-Responsive Repressor of l-Arabinose Utilization Genes in Corynebacterium glutamicum ATCC 31831
- Regulation of fructooligosaccharide metabolism in an extra‐intestinal pathogenic Escherichia coli strain
- Networks analysis of genes and microRNAs in human Wilms' tumors.
- Identification of Position-Specific Correlations between DNA-Binding Domains and Their Binding Sites. Application to the MerR Family of Transcription Factors
- Genetic and Genome-Wide Insights into Microbes Studied for Bioenergy
- Aquatic adaptation of a laterally acquired pectin degradation pathway in marine gammaproteobacteria
- The LacI–Family Transcription Factor, RbsR, Is a Pleiotropic Regulator of Motility, Virulence, Siderophore and Antibiotic Production, Gas Vesicle Morphogenesis and Flotation in Serratia
- Targeted in situ metatranscriptomics for selected taxa from mesophilic and thermophilic biogas plants
- Mapping DNA sequence to transcription factor binding energy in vivo
- Comparative Analysis of the IclR-Family of Bacterial Transcription Factors and Their DNA-Binding Motifs: Structure, Positioning, Co-Evolution, Regulon Content
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