Literature DB >> 34863368

Compendium of human transcription factor effector domains.

Luis F Soto1, Zhaorong Li2, Clarissa S Santoso3, Anna Berenson3, Isabella Ho4, Vivian X Shen4, Samson Yuan4, Juan I Fuxman Bass5.   

Abstract

Transcription factors (TFs) regulate gene expression by binding to DNA sequences and modulating transcriptional activity through their effector domains. Despite the central role of effector domains in TF function, there is a current lack of a comprehensive resource and characterization of effector domains. Here, we provide a catalog of 924 effector domains across 594 human TFs. Using this catalog, we characterized the amino acid composition of effector domains, their conservation across species and across the human population, and their roles in human diseases. Furthermore, we provide a classification system for effector domains that constitutes a valuable resource and a blueprint for future experimental studies of TF effector domain function.
Copyright © 2021 Elsevier Inc. All rights reserved.

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Year:  2021        PMID: 34863368      PMCID: PMC8818021          DOI: 10.1016/j.molcel.2021.11.007

Source DB:  PubMed          Journal:  Mol Cell        ISSN: 1097-2765            Impact factor:   17.970


  90 in total

Review 1.  Post-translational modifications influence transcription factor activity: a view from the ETS superfamily.

Authors:  Tina L Tootle; Ilaria Rebay
Journal:  Bioessays       Date:  2005-03       Impact factor: 4.345

2.  A High-Throughput Mutational Scan of an Intrinsically Disordered Acidic Transcriptional Activation Domain.

Authors:  Max V Staller; Alex S Holehouse; Devjanee Swain-Lenz; Rahul K Das; Rohit V Pappu; Barak A Cohen
Journal:  Cell Syst       Date:  2018-03-07       Impact factor: 10.304

3.  Enhancer Features that Drive Formation of Transcriptional Condensates.

Authors:  Krishna Shrinivas; Benjamin R Sabari; Eliot L Coffey; Isaac A Klein; Ann Boija; Alicia V Zamudio; Jurian Schuijers; Nancy M Hannett; Phillip A Sharp; Richard A Young; Arup K Chakraborty
Journal:  Mol Cell       Date:  2019-08-08       Impact factor: 17.970

4.  Widespread macromolecular interaction perturbations in human genetic disorders.

Authors:  Nidhi Sahni; Song Yi; Mikko Taipale; Juan I Fuxman Bass; Jasmin Coulombe-Huntington; Fan Yang; Jian Peng; Jochen Weile; Georgios I Karras; Yang Wang; István A Kovács; Atanas Kamburov; Irina Krykbaeva; Mandy H Lam; George Tucker; Vikram Khurana; Amitabh Sharma; Yang-Yu Liu; Nozomu Yachie; Quan Zhong; Yun Shen; Alexandre Palagi; Adriana San-Miguel; Changyu Fan; Dawit Balcha; Amelie Dricot; Daniel M Jordan; Jennifer M Walsh; Akash A Shah; Xinping Yang; Ani K Stoyanova; Alex Leighton; Michael A Calderwood; Yves Jacob; Michael E Cusick; Kourosh Salehi-Ashtiani; Luke J Whitesell; Shamil Sunyaev; Bonnie Berger; Albert-László Barabási; Benoit Charloteaux; David E Hill; Tong Hao; Frederick P Roth; Yu Xia; Albertha J M Walhout; Susan Lindquist; Marc Vidal
Journal:  Cell       Date:  2015-04-23       Impact factor: 41.582

5.  Promoter-specific transactivation of hepatitis B virus transcription by a glutamine- and proline-rich domain of hepatocyte nuclear factor 1.

Authors:  A K Raney; A J Easton; D R Milich; A McLachlan
Journal:  J Virol       Date:  1991-11       Impact factor: 5.103

6.  Alternative splicing of Pax-8 gene transcripts is developmentally regulated and generates isoforms with different transactivation properties.

Authors:  Z Kozmik; R Kurzbauer; P Dörfler; M Busslinger
Journal:  Mol Cell Biol       Date:  1993-10       Impact factor: 4.272

7.  Imaging dynamic and selective low-complexity domain interactions that control gene transcription.

Authors:  Shasha Chong; Claire Dugast-Darzacq; Zhe Liu; Peng Dong; Gina M Dailey; Claudia Cattoglio; Alec Heckert; Sambashiva Banala; Luke Lavis; Xavier Darzacq; Robert Tjian
Journal:  Science       Date:  2018-06-21       Impact factor: 47.728

Review 8.  Protein assembly systems in natural and synthetic biology.

Authors:  Giulio Chiesa; Szilvia Kiriakov; Ahmad S Khalil
Journal:  BMC Biol       Date:  2020-03-26       Impact factor: 7.431

9.  Single-gene imaging links genome topology, promoter-enhancer communication and transcription control.

Authors:  Jieru Li; Angela Hsu; Yujing Hua; Guanshi Wang; Lingling Cheng; Hiroshi Ochiai; Takashi Yamamoto; Alexandros Pertsinidis
Journal:  Nat Struct Mol Biol       Date:  2020-09-21       Impact factor: 15.369

10.  COSMIC: the Catalogue Of Somatic Mutations In Cancer.

Authors:  John G Tate; Sally Bamford; Harry C Jubb; Zbyslaw Sondka; David M Beare; Nidhi Bindal; Harry Boutselakis; Charlotte G Cole; Celestino Creatore; Elisabeth Dawson; Peter Fish; Bhavana Harsha; Charlie Hathaway; Steve C Jupe; Chai Yin Kok; Kate Noble; Laura Ponting; Christopher C Ramshaw; Claire E Rye; Helen E Speedy; Ray Stefancsik; Sam L Thompson; Shicai Wang; Sari Ward; Peter J Campbell; Simon A Forbes
Journal:  Nucleic Acids Res       Date:  2019-01-08       Impact factor: 16.971

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  2 in total

1.  Transcription factors perform a 2-step search of the nucleus.

Authors:  Max Valentín Staller
Journal:  Genetics       Date:  2022-09-30       Impact factor: 4.402

Review 2.  The Mediator complex as a master regulator of transcription by RNA polymerase II.

Authors:  William F Richter; Shraddha Nayak; Janet Iwasa; Dylan J Taatjes
Journal:  Nat Rev Mol Cell Biol       Date:  2022-06-20       Impact factor: 113.915

  2 in total

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