213d: Difference between revisions

From Proteopedia
Jump to navigationJump to search
← Older editNewer edit →
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,330,058 edits
No edit summary
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,330,058 edits
No edit summary
Line 1: Line 1:
[[Image:213d.gif|left|200px]]
{{Seed}}
[[Image:213d.png|left|200px]]


<!--
<!--
Line 9: Line 10:
{{STRUCTURE_213d|  PDB=213d  |  SCENE=  }}  
{{STRUCTURE_213d|  PDB=213d  |  SCENE=  }}  


'''CRYSTAL STRUCTURE OF THE A-DNA DECAMER D(CCIGGCCM5CGG) AT 1.6 ANGSTROMS SHOWING THE UNEXPECTED WOBBLE I.M5C BASE PAIR'''
===CRYSTAL STRUCTURE OF THE A-DNA DECAMER D(CCIGGCCM5CGG) AT 1.6 ANGSTROMS SHOWING THE UNEXPECTED WOBBLE I.M5C BASE PAIR===




==Overview==
<!--
The crystal structure of the self-complementary decamer d(CCIGGCCm5CGG), where I and m5C replace A and T, respectively, in the Watson-Crick B-DNA decamer d(CCAGGCCTGG) is in the A-DNA conformation. Furthermore, the A-DNA duplex exhibits the unexpected wobble I.m5C+ base pairs with N3 of 5-methylcytosine protonated. The crystals belong to the orthorhombic system, space group P2(1)2(1)2(1), with a = 25.02, b = 44.95 and c = 47.62 A with one DNA duplex in the asymmetric unit. Intensity data were collected on our Siemens area detector to 1.6 A resolution. The structure was solved by the molecular placement method starting with a model from an isomorphous structure. The refinement gave a final R value of 16.3% for 404 DNA atoms and 104 water molecules using 5119 reflections. The hydration of the I.m5C+ wobble base pairs in the major groove stabilizes them as in the G.T/G.U wobbles. A comparison with the Watson-Crick base pairs of another isomorphous structure d(GCGGGCCCGC) reveals that the wobble base pairs are better described by a rotation of the individual nucleotide units around their centers of gravity. This is in contrast to the earlier description of translation of the bases into the grooves. The exposed N4 amino group of 5-methylcytosine in the wobble base pair provides a rationale for its deamination to thymine.
The line below this paragraph, {{ABSTRACT_PUBMED_8527669}}, adds the Publication Abstract to the page
(as it appears on PubMed at http://www.pubmed.gov), where 8527669 is the PubMed ID number.
-->
{{ABSTRACT_PUBMED_8527669}}


==About this Structure==
==About this Structure==
Line 25: Line 29:
[[Category: Double helix]]
[[Category: Double helix]]
[[Category: Modified]]
[[Category: Modified]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 18:18:44 2008''
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Jul 27 15:10:01 2008''

Revision as of 12:10, 27 July 2008

File:213d.png

Template:STRUCTURE 213d

CRYSTAL STRUCTURE OF THE A-DNA DECAMER D(CCIGGCCM5CGG) AT 1.6 ANGSTROMS SHOWING THE UNEXPECTED WOBBLE I.M5C BASE PAIR

Template:ABSTRACT PUBMED 8527669

About this Structure

Full crystallographic information is available from OCA.

Reference

Crystal structure of the A-DNA decamer d(CCIGGCCm5CGG) at 1.6 A showing the unexpected wobble I.m5C base pair., Ramakrishnan B, Sundaralingam M, Biophys J. 1995 Aug;69(2):553-8. PMID:8527669

Page seeded by OCA on Sun Jul 27 15:10:01 2008

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "https://proteopedia.org/index.php?title=213d&oldid=652590"