Computer conformation analysis of TATA-box sequences in eukaryotic promoters

被引：0
|
作者：
Ponomarenko, MP [1 ]
Ponomarenko, YV
Kel', AE
Kolchanov, NA
Karas, H
Wingender, E
Sklenar, H
机构：
[1] Russian Acad Sci, Inst Cytol & Genet, Siberian Div, Novosibirsk 630090, Russia
[2] Gesell Biotechnol Forsch GmbH, D-38124 Braunschweig, Germany
[3] Max Delbruck Ctr Mol Med, D-13122 Berlin, Germany
来源：
MOLECULAR BIOLOGY | 1997年 / 31卷 / 04期
关键词：
TATA-box; computer analysis; B-DNA; transcription;
D O I：
暂无
中图分类号：
Q5 [生物化学]; Q7 [分子生物学];
学科分类号：
071010 ; 081704 ;
摘要：
We have developed a method for revealing local conformation properties of binding sites for transcription factors, based on conformation indices of B-sheet DNA hexanucleotide duplexes and computer system SITEVIDEO. Analysis of sequences with TATA box has revealed the promoter regions with certain conformation indices of B-sheet DNA significantly changed as compared with arbitrary sequences: TATA-box DNA has a lower angle of helical twist, smaller distance between neighbor base pairs along the DNA helix axis, wider minor and narrower major DNA grooves.
引用
收藏
页码：623 / 630
页数：8
相关论文
共 50 条
  • [11] DEVIANT TATA-BOX BINDING-PROTEIN
    HYDE, JE
    SIMS, PFG
    READ, M
    MCANDREW, MB
    NATURE, 1992, 360 (6404) : 541 - 541
  • [12] Mouse Dfa Is a Repressor of TATA-box Promoters and Interacts with the Abt1 Activator of Basal Transcription
    Brower, Christopher S.
    Veiga, Lucia
    Jones, Richard H.
    Varshavsky, Alexander
    JOURNAL OF BIOLOGICAL CHEMISTRY, 2010, 285 (22) : 17218 - 17234
  • [13] A T9G Mutation in the Prototype TATA-Box TCACTATATATAG Determines Nucleosome Formation and Synergy with Upstream Activator Sequences in Plant Promoters
    Ranjan, Amol
    Ansari, Suraiya A.
    Srivastava, Rakesh
    Mantri, Shrikant
    Asif, Mehar H.
    Sawant, Samir V.
    Tuli, Rakesh
    PLANT PHYSIOLOGY, 2009, 151 (04) : 2174 - 2186
  • [14] Conformational properties of the TATA-box binding sequence of DNA
    Flatters, D
    Young, M
    Beveridge, DL
    Lavery, R
    JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS, 1997, 14 (06): : 757 - 765
  • [15] Molecular modelling of TATA-box related short nucleotides
    Cirkin, H.
    Selcuki, C.
    FEBS OPEN BIO, 2021, 11 : 358 - 358
  • [16] Conserved features of complexes of TATA-box binding proteins with DNA
    Zanegina, Olga
    Aksianov, Evgeniy
    Alexeevski, Andrei V.
    Karyagina, Anna
    Spirin, Sergei
    JOURNAL OF BIOINFORMATICS AND COMPUTATIONAL BIOLOGY, 2016, 14 (02)
  • [17] FUNCTIONAL-HETEROGENEITY OF MAMMALIAN TATA-BOX SEQUENCES REVEALED BY INTERACTION WITH A CELL-SPECIFIC ENHANCER
    WEFALD, FC
    DEVLIN, BH
    WILLIAMS, RS
    NATURE, 1990, 344 (6263) : 260 - 262
  • [18] Entamoeba histolytica TATA-box binding protein binds to different TATA variants in vitro
    de Dios-Bravo, G
    Luna-Arias, JP
    Riverón, AM
    Olivares-Trejo, JJ
    López-Camarillo, C
    Orozco, E
    FEBS JOURNAL, 2005, 272 (06) : 1354 - 1366
  • [19] Towards TATA-Box Melting: A Computational Study of DNA Unwinding
    Liebl, K.
    Zacharias, M.
    EUROPEAN BIOPHYSICS JOURNAL WITH BIOPHYSICS LETTERS, 2019, 48 : S221 - S221
  • [20] THE SPATIAL RELATIONSHIP BETWEEN THE TATA-BOX AND THE SITE OF INITIATION OF TRANSCRIPTION
    KOVACS, BJ
    BUTTERWORTH, PHW
    BIOCHEMICAL SOCIETY TRANSACTIONS, 1986, 14 (02) : 274 - 275
12345