Literature DB >> 8757802

Structure of the CAP-DNA complex at 2.5 angstroms resolution: a complete picture of the protein-DNA interface.

G Parkinson1, C Wilson, A Gunasekera, Y W Ebright, R H Ebright, R E Ebright, H M Berman.   

Abstract

The crystallographic structure of the CAP-DNA complex at 3.0 A resolution has been reported previously. For technical reasons, the reported structure had been determined using a gapped DNA molecule lacking two phosphates important for CAP-DNA interaction. In this work, we report the crystallographic structure of the CAP-DNA complex at 2.5 A resolution using a DNA molecule having all phosphates important for CAP-DNA interaction. The present resolution permits unambiguous identification of amino acid-base and amino acid-phosphate hydrogen bonded contacts in the CAP-DNA complex. In addition, the present resolution permits accurate definition of the kinked DNA conformation in the CAP-DNA complex.

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Year:  1996        PMID: 8757802     DOI: 10.1006/jmbi.1996.0409

Source DB:  PubMed          Journal:  J Mol Biol        ISSN: 0022-2836            Impact factor:   5.469


  83 in total

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Journal:  J Biomol NMR       Date:  2000-01       Impact factor: 2.835

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Journal:  J Bacteriol       Date:  1999-04       Impact factor: 3.490

4.  The high-resolution crystal structure of the molybdate-dependent transcriptional regulator (ModE) from Escherichia coli: a novel combination of domain folds.

Authors:  D R Hall; D G Gourley; G A Leonard; E M Duke; L A Anderson; D H Boxer; W N Hunter
Journal:  EMBO J       Date:  1999-03-15       Impact factor: 11.598

5.  A simple mechanism for co-dependence on two activators at an Escherichia coli promoter.

Authors:  J T Wade; T A Belyaeva; E I Hyde; S J Busby
Journal:  EMBO J       Date:  2001-12-17       Impact factor: 11.598

6.  The evolution of DNA regulatory regions for proteo-gamma bacteria by interspecies comparisons.

Authors:  Nikolaus Rajewsky; Nicholas D Socci; Martin Zapotocky; Eric D Siggia
Journal:  Genome Res       Date:  2002-02       Impact factor: 9.043

7.  Binding sites of different geometries for the 16-3 phage repressor.

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Journal:  Proc Natl Acad Sci U S A       Date:  2002-06-25       Impact factor: 11.205

8.  The N-terminal capping propensities of the D-helix modulate the allosteric activation of the Escherichia coli cAMP receptor protein.

Authors:  Shaoning Yu; Rodrigo A Maillard; Alexey V Gribenko; J Ching Lee
Journal:  J Biol Chem       Date:  2012-10-03       Impact factor: 5.157

9.  Probing sequence-specific DNA flexibility in a-tracts and pyrimidine-purine steps by nuclear magnetic resonance (13)C relaxation and molecular dynamics simulations.

Authors:  Evgenia N Nikolova; Gavin D Bascom; Ioan Andricioaei; Hashim M Al-Hashimi
Journal:  Biochemistry       Date:  2012-10-18       Impact factor: 3.162

10.  Structure of the heterodimeric ecdysone receptor DNA-binding complex.

Authors:  Srikripa Devarakonda; Joel M Harp; Youngchang Kim; Andrzej Ozyhar; Fraydoon Rastinejad
Journal:  EMBO J       Date:  2003-11-03       Impact factor: 11.598

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