Literature DB >> 23027741

Structure of d(CCGGGACCGG)4 as a four-way junction at 1.6 Å resolution: new insights into solvent interactions.

Arka Chakraborty1, Pradeep Kumar Mandal, Namasivayam Gautham.   

Abstract

The crystal structure of the decamer sequence d(CCGGGACCGG)(4) has previously been reported at 2.16 Å resolution as a four-way junction. Here, the structure of this sequence is reported at the significantly higher resolution of 1.6 Å, which is the highest resolution reported for a four-way junction. This allowed the unambiguous identification of an extensive hydration network with distinct patterns and solvent-mediated interactions that shed new light on the role of water in the formation and stabilization of junction structures.

Entities:  

Mesh：

Substances：

Year:  2012        PMID： 23027741      PMCID： PMC3497973          DOI： 10.1107/S1744309112034926

Source DB:  PubMed          Journal:  Acta Crystallogr Sect F Struct Biol Cryst Commun        ISSN： 1744-3091


  26 in total

1.  Mapping the functional surface of domain 2 in the gelsolin superfamily.

Authors:  Y A Puius; E V Fedorov; L Eichinger; M Schleicher; S C Almo
Journal:  Biochemistry       Date:  2000-05-09       Impact factor: 3.162

2.  Structural characterization of a new crystal form of the four-way Holliday junction formed by the DNA sequence d(CCGGTACCGG)2: sequence versus lattice?

Authors:  James H Thorpe; Susana C M Teixeira; Benjamin C Gale; Christine J Cardin
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2002-02-21

3.  Conformational and hydration effects of site-selective sodium, calcium and strontium ion binding to the DNA Holliday junction structure d(TCGGTACCGA)(4).

Authors:  James H Thorpe; Benjamin C Gale; Susana C M Teixeira; Christine J Cardin
Journal:  J Mol Biol       Date:  2003-03-14       Impact factor: 5.469

Review 4.  Caution! DNA crossing: crystal structures of Holliday junctions.

Authors:  Franklin A Hays; Jeffrey Watson; P Shing Ho
Journal:  J Biol Chem       Date:  2003-10-16       Impact factor: 5.157

5.  3DNA: a software package for the analysis, rebuilding and visualization of three-dimensional nucleic acid structures.

Authors:  Xiang-Jun Lu; Wilma K Olson
Journal:  Nucleic Acids Res       Date:  2003-09-01       Impact factor: 16.971

6.  The inherent properties of DNA four-way junctions: comparing the crystal structures of holliday junctions.

Authors:  Brandt F Eichman; Miguel Ortiz-Lombardía; Joan Aymamí; Miquel Coll; Pui Shing Ho
Journal:  J Mol Biol       Date:  2002-07-26       Impact factor: 5.469

7.  The architecture of metal coordination groups in proteins.

Authors:  Marjorie M Harding
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2004-04-21

8.  Insights into the mechanism of Escherichia coli methionine aminopeptidase from the structural analysis of reaction products and phosphorus-based transition-state analogues.

Authors:  W T Lowther; Y Zhang; P B Sampson; J F Honek; B W Matthews
Journal:  Biochemistry       Date:  1999-11-09       Impact factor: 3.162

9.  Effect of sequence on the conformation of DNA holliday junctions.

Authors:  Franklin A Hays; Jeffrey M Vargason; P Shing Ho
Journal:  Biochemistry       Date:  2003-08-19       Impact factor: 3.162

10.  REFMAC5 for the refinement of macromolecular crystal structures.

Authors:  Garib N Murshudov; Pavol Skubák; Andrey A Lebedev; Navraj S Pannu; Roberto A Steiner; Robert A Nicholls; Martyn D Winn; Fei Long; Alexei A Vagin
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2011-03-18
View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.