ArticleThe Journal of biological chemistry2002
Crystal structure of Thermotoga maritima 0065, a member of the IclR transcriptional factor family.
Article in The Journal of biological chemistry, 2002. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
25 citing papers in PubMed, 76 citations in OpenAlex.
- Experimental evolution in the cystic fibrosis chemical environment reveals early TCA cycle flux as a central regulator ofBiofilm · 2026Article
- Transcriptomic profiling of haloarchaeal denitrification through RNA-Seq analysis.Applied and environmental microbiology · 2024Article
- Comparative Analysis of the IclR-Family of Bacterial Transcription Factors and Their DNA-Binding Motifs: Structure, Positioning, Co-Evolution, Regulon Content.Frontiers in microbiology · 2021Article
- Characteristic and role of chromosomal type II toxin-antitoxin systems locus in Enterococcus faecalis ATCC29212.Journal of microbiology (Seoul, Korea) · 2020Article
- Molecular control of gene expression byThe Journal of biological chemistry · 2018Article
- Crystal structure of an IclR homologue from Microbacterium sp. strain HM58-2.Acta crystallographica. Section F, Structural biology communications · 2017Article
- A microbial sensor for organophosphate hydrolysis exploiting an engineered specificity switch in a transcription factor.Nucleic acids research · 2016Article
- D101 is critical for the function of AttJ, a repressor of quorum quenching system in Agrobacterium tumefaciens.Journal of microbiology (Seoul, Korea) · 2015Article
- Genome-scale analysis reveals a role for NdgR in the thiol oxidative stress response in Streptomyces coelicolor.BMC genomics · 2015Article
- Article
- The Agrobacterium tumefaciens transcription factor BlcR is regulated via oligomerization.The Journal of biological chemistry · 2011Article
- Crystal structure of TtgV in complex with its DNA operator reveals a general model for cooperative DNA binding of tetrameric gene regulators.Genes & development · 2010Article
- 3-Hydroxyphenylpropionate and phenylpropionate are synergistic activators of the MhpR transcriptional regulator from Escherichia coli.The Journal of biological chemistry · 2009Article
- TtgV represses two different promoters by recognizing different sequences.Journal of bacteriology · 2009Article
- Genome sequence of Brucella abortus vaccine strain S19 compared to virulent strains yields candidate virulence genes.PloS one · 2008Article
- Structural and biochemical characterization of a novel Mn2+-dependent phosphodiesterase encoded by the yfcE gene.Protein science : a publication of the Protein Society · 2007Article
- The genome sequence of Mannheimia haemolytica A1: insights into virulence, natural competence, and Pasteurellaceae phylogeny.Journal of bacteriology · 2006Article
- Structural characterization of GntR/HutC family signaling domain.Protein science : a publication of the Protein Society · 2006Article
- The IclR family of transcriptional activators and repressors can be defined by a single profile.Protein science : a publication of the Protein Society · 2006Article
- Structure of peptide sex pheromone receptor PrgX and PrgX/pheromone complexes and regulation of conjugation in Enterococcus faecalis.Proceedings of the National Academy of Sciences of the United States of America · 2005Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
9 authors at 4 institutions in 3 countries.
Funding
Abstract
Members of the IclR family of transcription regulators modulate signal-dependent expression of genes involved in carbon metabolism in bacteria and archaea. The Thermotoga maritima TM0065 gene codes for a protein (TM-IclR) that is homologous to the IclR family. We have determined the crystal structure of TM-IclR at 2.2 A resolution using MAD phasing and synchrotron radiation. The protein is composed of two domains: the N-terminal DNA-binding domain contains the winged helix-turn-helix motif, and the C-terminal presumed regulatory domain is involved in binding signal molecule. In a proposed signal-binding site, a bound Zn(2+) ion was found. In the crystal, TM-IclR forms a dimer through interactions between DNA-binding domains. In the dimer, the DNA-binding domains are 2-fold related, but the dimer is asymmetric with respect to the orientation of signal-binding domains. Crystal packing analysis showed that TM-IclR dimers form a tetramer through interactions exclusively by signal-binding domains. A model is proposed for binding of IclR-like factors to DNA, and it suggests that signal-dependent transcription regulation is accomplished by affecting an oligomerization state of IclR and therefore its affinity for DNA target.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.