Literature DB >> 26342073

Flexibility and Disorder in Gene Regulation: LacI/GalR and Hox Proteins.

Sarah E Bondos1, Liskin Swint-Kruse2, Kathleen S Matthews3.   

Abstract

To modulate transcription, a variety of input signals must be sensed by genetic regulatory proteins. In these proteins, flexibility and disorder are emerging as common themes. Prokaryotic regulators generally have short, flexible segments, whereas eukaryotic regulators have extended regions that lack predicted secondary structure (intrinsic disorder). Two examples illustrate the impact of flexibility and disorder on gene regulation: the prokaryotic LacI/GalR family, with detailed information from studies on LacI, and the eukaryotic family of Hox proteins, with specific insights from investigations of Ultrabithorax (Ubx). The widespread importance of structural disorder in gene regulatory proteins may derive from the need for flexibility in signal response and, particularly in eukaryotes, in protein partner selection.
© 2015 by The American Society for Biochemistry and Molecular Biology, Inc.

Entities:  

Keywords:  DNA; DNA operator; DNA-binding protein; Hox proteins; LacI/GalR proteins; Ultrabithorax; gene regulation; intrinsic disorder; protein flexibility; repressor protein; transcription factor

Mesh:

Substances:

Year:  2015        PMID: 26342073      PMCID: PMC4598980          DOI: 10.1074/jbc.R115.685032

Source DB:  PubMed          Journal:  J Biol Chem        ISSN: 0021-9258            Impact factor:   5.157


  99 in total

1.  Conformational changes of ribose-binding protein and two related repressors are tailored to fit the functional need.

Authors:  S L Mowbray; A J Björkman
Journal:  J Mol Biol       Date:  1999-11-26       Impact factor: 5.469

2.  Structure of a DNA-bound Ultrabithorax-Extradenticle homeodomain complex.

Authors:  J M Passner; H D Ryoo; L Shen; R S Mann; A K Aggarwal
Journal:  Nature       Date:  1999-02-25       Impact factor: 49.962

3.  Why are "natively unfolded" proteins unstructured under physiologic conditions?

Authors:  V N Uversky; J R Gillespie; A L Fink
Journal:  Proteins       Date:  2000-11-15

Review 4.  Recognition of specific DNA sequences.

Authors:  C W Garvie; C Wolberger
Journal:  Mol Cell       Date:  2001-11       Impact factor: 17.970

5.  Engineered disulfide linking the hinge regions within lactose repressor dimer increases operator affinity, decreases sequence selectivity, and alters allostery.

Authors:  C M Falcon; K S Matthews
Journal:  Biochemistry       Date:  2001-12-25       Impact factor: 3.162

6.  Operator DNA sequence variation enhances high affinity binding by hinge helix mutants of lactose repressor protein.

Authors:  C M Falcon; K S Matthews
Journal:  Biochemistry       Date:  2000-09-12       Impact factor: 3.162

7.  Phosphorylation status of the SCR homeodomain determines its functional activity: essential role for protein phosphatase 2A,B'.

Authors:  M Berry; W Gehring
Journal:  EMBO J       Date:  2000-06-15       Impact factor: 11.598

8.  Evolution of a transcriptional repression domain in an insect Hox protein.

Authors:  Ron Galant; Sean B Carroll
Journal:  Nature       Date:  2002-02-06       Impact factor: 49.962

9.  Transcription activation by ultrabithorax Ib protein requires a predicted alpha-helical region.

Authors:  Xin-Xing Tan; Sarah Bondos; Likun Li; Kathleen S Matthews
Journal:  Biochemistry       Date:  2002-02-26       Impact factor: 3.162

10.  Structure of a variant of lac repressor with increased thermostability and decreased affinity for operator.

Authors:  C E Bell; J Barry; K S Matthews; M Lewis
Journal:  J Mol Biol       Date:  2001-10-12       Impact factor: 5.469

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Journal:  Nat Commun       Date:  2017-04-21       Impact factor: 14.919

5.  Mechanisms of Specificity for Hox Factor Activity.

Authors:  Arya Zandvakili; Brian Gebelein
Journal:  J Dev Biol       Date:  2016-05-09

6.  Lactose repressor hinge domain independently binds DNA.

Authors:  Joseph S Xu; Madeleine N Hewitt; Jaskeerat S Gulati; Matthew A Cruz; Hongli Zhan; Shirley Liu; Kathleen S Matthews
Journal:  Protein Sci       Date:  2018-02-16       Impact factor: 6.725

7.  Mechanism of conditional partner selectivity in MITF/TFE family transcription factors with a conserved coiled coil stammer motif.

Authors:  Vivian Pogenberg; Josué Ballesteros-Álvarez; Romana Schober; Ingibjörg Sigvaldadóttir; Agnieszka Obarska-Kosinska; Morlin Milewski; Rainer Schindl; Margrét Helga Ögmundsdóttir; Eiríkur Steingrímsson; Matthias Wilmanns
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Review 8.  The aryl hydrocarbon receptor as a model PAS sensor.

Authors:  Emmanuel Vazquez-Rivera; Brenda Rojas; Jessica C Parrott; Anna L Shen; Yongna Xing; Patrick R Carney; Christopher A Bradfield
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  8 in total

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