ArticleQuantitative biology (Beijing, China)2015
A quantitative understanding of lac repressor's binding specificity and flexibility.
Article in Quantitative biology (Beijing, China), 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
What it found
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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.
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Who cites it
11 citing papers in PubMed, 14 citations in OpenAlex.
- Rugged fitness landscapes minimize promiscuity in the evolution of transcriptional repressors.Cell systems · 2024Article
- KaScape: a sequencing-based method for global characterization of protein‒DNA binding affinity.Scientific reports · 2023Article
- The Non-continuum Nature of Eukaryotic Transcriptional Regulation.Advances in experimental medicine and biology · 2022Article
- Deep representation learning improves prediction of LacI-mediated transcriptional repression.Proceedings of the National Academy of Sciences of the United States of America · 2021Article
- Integrating genome sequence and structural data for statistical learning to predict transcription factor binding sites.Nucleic acids research · 2020Article
- Mapping DNA sequence to transcription factor binding energy in vivo.PLoS computational biology · 2019Article
- Lactose repressor hinge domain independently binds DNA.Protein science : a publication of the Protein Society · 2018Article
- Quantitative profiling of BATF family proteins/JUNB/IRF hetero-trimers using Spec-seq.BMC molecular biology · 2018Article
- Deciphering the protein-DNA code of bacterial winged helix-turn-helix transcription factors.Quantitative biology (Beijing, China) · 2018Article
- Measuring quantitative effects of methylation on transcription factor-DNA binding affinity.Science advances · 2017Article
- Quantitative specificity of STAT1 and several variants.Nucleic acids research · 2017Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors at 1 institution in 1 country.
Funding
Abstract
Lac repressor, the first discovered transcriptional regulator, has been shown to confer multiple-modes of binding to its operator sites depending on the central spacer length. Other homolog members in the LacI/GalR family (PurR and YcjW) cannot bind their operator sites with similar structural flexibility. To decipher the underlying mechanism for this unique property, we used Spec-seq approach combined with site-directed mutagenesis to quantify the DNA binding specificity of multiple hybrids of lacI and PurR. We find that lac repressor's recognition di-residues YQ and its hinge helix loop regions are both critical for its structural flexibility. Also, specificity profiling of the whole lac operator suggests that a simple additive model from single variants suffice to predict other multivariant sites' energy reasonably well, and the genome occupancy model based on this specificity data correlates well with
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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.