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A folding transition and novel zinc finger accessory domain in the transcription factor ADR1.

Bowers PM, Schaufler LE, Klevit RE
Nat Struct Biol 6 478-85 (1999)
Cited: 37 times
EuropePMC logo PMID: 10331877

Abstract

The region responsible for sequence-specific DNA binding by the transcription factor ADR1 contains two Cys2-His2 zinc fingers and an additional N-terminal proximal accessory region (PAR). The N-terminal (non-finger) PAR is unstructured in the absence of DNA and undergoes a folding transition on binding the DNA transcription target site. We have used a set of HN-HN NOEs derived from a perdeuterated protein-DNA complex to describe the fold of ADR1 bound to the UAS1 binding site. The PAR forms a compact domain consisting of three antiparallel strands that contact A-T base pairs in the major groove. The three-strand domain is a novel fold among all known DNA-binding proteins. The PAR shares sequence homology with the N-terminal regions of other zinc finger proteins, suggesting that it represents a new DNA-binding module that extends the binding repertoire of zinc finger proteins.

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Reviews citing this publication (5)

  1. Coupling of folding and binding for unstructured proteins. Dyson HJ, Wright PE. Curr Opin Struct Biol 12 54-60 (2002)
  2. DNA recognition by Cys2His2 zinc finger proteins. Wolfe SA, Nekludova L, Pabo CO. Annu Rev Biophys Biomol Struct 29 183-212 (2000)
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  4. Zinc'ing sensibly: controlling zinc homeostasis at the transcriptional level. Choi S, Bird AJ. Metallomics 6 1198-1215 (2014)
  5. Multifaceted roles of zinc finger proteins in regulating various agronomic traits in rice. Huang Y, Du L, Wang M, Ren M, Yu S, Yang Q. Front Plant Sci 13 974396 (2022)

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  2. Quaternary structures of tumor suppressor p53 and a specific p53 DNA complex. Tidow H, Melero R, Mylonas E, Freund SM, Grossmann JG, Carazo JM, Svergun DI, Valle M, Fersht AR. Proc Natl Acad Sci U S A 104 12324-12329 (2007)
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  4. Reduction in DNA-binding affinity of Cys2His2 zinc finger proteins by linker phosphorylation. Jantz D, Berg JM. Proc Natl Acad Sci U S A 101 7589-7593 (2004)
  5. NMR structure of the single QALGGH zinc finger domain from the Arabidopsis thaliana SUPERMAN protein. Isernia C, Bucci E, Leone M, Zaccaro L, Di Lello P, Digilio G, Esposito S, Saviano M, Di Blasio B, Pedone C, Pedone PV, Fattorusso R. Chembiochem 4 171-180 (2003)
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  7. Assessment by molecular dynamics simulations of the structural determinants of DNA-binding specificity for transcription factor Sp1. Marco E, García-Nieto R, Gago F. J Mol Biol 328 9-32 (2003)
  8. 14-3-3 (Bmh) proteins inhibit transcription activation by Adr1 through direct binding to its regulatory domain. Parua PK, Ratnakumar S, Braun KA, Dombek KM, Arms E, Ryan PM, Young ET. Mol Cell Biol 30 5273-5283 (2010)
  9. Identification of the oncogenic kinase TOPK/PBK as a master mitotic regulator of C2H2 zinc finger proteins. Rizkallah R, Batsomboon P, Dudley GB, Hurt MM. Oncotarget 6 1446-1461 (2015)
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  13. The double zinc finger domain and adjacent accessory domain from the transcription factor loss of zinc sensing 1 (loz1) are necessary for DNA binding and zinc sensing. Ehrensberger KM, Corkins ME, Choi S, Bird AJ. J Biol Chem 289 18087-18096 (2014)
  14. Phylogenic analysis revealed an expanded C₂H₂-homeobox subfamily and expression profiles of C₂H₂ zinc finger gene family in Verticillium dahliae. Xiong D, Wang Y, Deng C, Hu R, Tian C. Gene 562 169-179 (2015)
  15. Sequence-specific binding of recombinant Zbed4 to DNA: insights into Zbed4 participation in gene transcription and its association with other proteins. Mokhonov VV, Theendakara VP, Gribanova YE, Ahmedli NB, Farber DB. PLoS One 7 e35317 (2012)
  16. Solution structure of an archaeal DNA binding protein with an eukaryotic zinc finger fold. Guillière F, Danioux C, Jaubert C, Desnoues N, Delepierre M, Prangishvili D, Sezonov G, Guijarro JI. PLoS One 8 e52908 (2013)


Related citations provided by authors (2)

  1. A Disorder-to-Order Transition Couled to DNA Binding in the Essential Zinc-Finger DNA-Binding of Yeast Adr1 Elucidated by Backbone Dynamics and Proton Exchange. Hyre DE, Klevit RE To be published -
  2. NMR Chemical Shift Perturbation Mapping of DNA Binding by a Zinc-Finger Domain from the Yeast Transcription Factor Adr1. Schmiedeskamp M, Rajagopal P, Klevit RE Protein Sci. 6 1835- (1997)

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