X-Ray analysis of d(CGCGAATTXGCG)2 containing a 2′-deoxy-N4-methoxycytosine residue at X: A characteristic pattern of sugar puckers in the crystalline state of the Dickerson-Drew type DNA dodecamers

Biophysical Chemistry

Volumn 95, Issue 1, 2002, Pages 69-77

  Tofazzal Hossain, M ^a   Kondo, Jiro ^a   Ueno, Yoshihito ^b   Matsuda, Akira ^b   Takénaka, Akio ^a  

^a TOKYO INSTITUTE OF TECHNOLOGY   (Japan)

^b HOKKAIDO UNIVERSITY   (Japan)

Author keywords

Damaged DNA; DNA dodecamer; N4 methoxycytosine; Sugar pucker; X Ray structure

Indexed keywords

2' DEOXY N4 METHOXYCYTOSINE; CYTOSINE DERIVATIVE; DNA; SUGAR; UNCLASSIFIED DRUG;

ARTICLE; CARBOHYDRATE ANALYSIS; CHEMICAL MODIFICATION; CONFORMATION; CRYSTAL STRUCTURE; CRYSTALLOGRAPHY; DNA DAMAGE; DNA DETERMINATION; DNA SEQUENCE; DNA SYNTHESIS; MOLECULAR INTERACTION; PRIORITY JOURNAL; X RAY DIFFRACTION;

CRYSTALLIZATION; CRYSTALLOGRAPHY, X-RAY; CYTOSINE; DNA; GUANINE; MAGNESIUM; MODELS, MOLECULAR; NUCLEIC ACID CONFORMATION; OLIGODEOXYRIBONUCLEOTIDES;

EID: 0037160544     PISSN: 03014622     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0301-4622(01)00249-6     Document Type: Article

References (25)

1. Stereochemistry of nucleic acids and their constituents. IV. Allowed and preferred conformations of nucleosides, nucleoside mono-, di-, tri-, tetraphosphates, nucleic acids and polynucleotides
2. The molecular configuration of deoxyribonucleic acid II. Molecular models and their Fourier transforms
3. Molecular and crystal structures of double-helical RNA III, an 11-fold molecular model and comparison of the agreement between the observed and calculated three-dimensional diffraction data for 10- and 11-fold models
4. The geometry of nucleic acids
5. NUPARAM and NUCGEN: Software for analysis and generation of sequence dependent nucleic acid structures
6. Definitions and nomenclature of nucleic acid structure parameters
7. Conformational analysis of the sugar ring in nucleosides and nucleotides. A new description using the concept of pseudorotation
8. 6-methoxyadenine can present two alternate faces for Watsons-Crick base-pairing, leading to pyrimidine transition mutagenesis
9. 6-methoxyadenine residue forms a Watson-Crick pair with a cytosine residue in a B-DNA duplex
10. 4-methoxycytosine shows a second face for Watson-Crick base-pairing, leading to purine transition mutagenesis
11. 4-methoxycytosine can form both Watson-Crick type and wobbled base pairs in a B-form duplex
12. A crystallographic map of the transition from B-DNA to A-DNA
13. An A-type double helix of DNA having B-type puckering of the deoxyribose rings
14. DNA structure from A to B
15. Synthesis and duplex stability of oligonucleotides containing cytosine-thymine analogues
16. X-Ray diffraction data collection system for modern protein crystallography with Weissenberg camera and an imaging plate using synchroton radiation
17. Processing of X-ray diffraction data collected in oscillation mode: Macromolecular crystallography Part A
18. The CCP4 suite: Program: Programs for protein crystallography
19. AMoRe: An automated package for molecular replacement
20. The B-DNA dodecamer at high resolution reveals a spine of water on sodium
21. Crystallography & NMR System: A new software suite for macromolecular structure determination
22. Cations mediate B-DNA conformational heterogeneity
23. Free-R value: A novel statistical quantity for assessing the accuracy of crystal structures
24. MOLSCRIPT: A program to produce both detailed and schematic plots of protein structures
25. Improved methods for building protein models in electron density maps and the location of errors in these models