1g5d: Difference between revisions

Line 1:

[[Image:1g5d.~~gif~~|left|200px]]

[[Image:1g5d.png|left|200px]]

<!--

Line 9:

Line 10:

~~'''~~NMR STRUCTURE OF AN OLIGONUCLEOTIDE CONTAINING AN ABASIC SITE: ALPHA ANOMER~~'''~~

===NMR STRUCTURE OF AN OLIGONUCLEOTIDE CONTAINING AN ABASIC SITE: ALPHA ANOMER===

~~==Overview==~~

<!--

The ~~antitumor antibiotic bleomycin causes two major lesions in~~ the ~~deoxyribose backbone of DNA~~: ~~formation of 4'-keto abasic sites and formation of strand breaks with 3'-phosphoglycolate and 5'-phosphate ends~~. ~~As a model for the 4'-keto abasic site, we have characterized an abasic site (X) in d(CCAAAGXACTGGG)~~.~~d(CCCAGTACTTTGG~~) by two-dimensional NMR spectroscopy. A total of 475 NOEs and 101 dihedral angles provided the restraints for molecular modeling. Four unusual NOEs were observed between each anomer of the abasic site and the neighboring bases. In addition, ~~four coupling constants for adjacent protons of the deoxyribose of both the alpha and beta anomers of the abasic site were observed. The modeling suggests that for both anomers the abasic site~~ is ~~extrahelical, without significant distortion of~~ the backbone opposite the lesion. The coupling constants further allowed assignment of an unusual sugar pucker for each anomer. The unique position of the abasic site in our structural model for each anomer is discussed in terms of repair of such lesions in vivo.

The line below this paragraph, {{ABSTRACT_PUBMED_11504879}}, adds the Publication Abstract to the page

(as it appears on PubMed at http://www.pubmed.gov), where 11504879 is the PubMed ID number.

-->

==About this Structure==

Full ~~crystallographic~~ information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G5D OCA].

Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G5D OCA].

==Reference==

Line 25:

Line 29:

[[Category: Apyrimidinic site]]

[[Category: Damaged dna]]

''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Fri May~~ ~~2 17~~:09:25 2008''

''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 1 04:27:22 2008''

Navigation menu

Page actions

Page actions

Personal tools

Navigation

Search

Tools

@@ Line 1: / Line 1: @@
-[[Image:1g5d.gif|left|200px]]
+{{Seed}}
+[[Image:1g5d.png|left|200px]]
 <!--
@@ Line 9: / Line 10: @@
 {{STRUCTURE_1g5d|  PDB=1g5d  |  SCENE=  }}
-'''NMR STRUCTURE OF AN OLIGONUCLEOTIDE CONTAINING AN ABASIC SITE: ALPHA ANOMER'''
+===NMR STRUCTURE OF AN OLIGONUCLEOTIDE CONTAINING AN ABASIC SITE: ALPHA ANOMER===
-==Overview==
+<!--
-The antitumor antibiotic bleomycin causes two major lesions in the deoxyribose backbone of DNA: formation of 4'-keto abasic sites and formation of strand breaks with 3'-phosphoglycolate and 5'-phosphate ends. As a model for the 4'-keto abasic site, we have characterized an abasic site (X) in d(CCAAAGXACTGGG).d(CCCAGTACTTTGG) by two-dimensional NMR spectroscopy. A total of 475 NOEs and 101 dihedral angles provided the restraints for molecular modeling. Four unusual NOEs were observed between each anomer of the abasic site and the neighboring bases. In addition, four coupling constants for adjacent protons of the deoxyribose of both the alpha and beta anomers of the abasic site were observed. The modeling suggests that for both anomers the abasic site is extrahelical, without significant distortion of the backbone opposite the lesion. The coupling constants further allowed assignment of an unusual sugar pucker for each anomer. The unique position of the abasic site in our structural model for each anomer is discussed in terms of repair of such lesions in vivo.
+The line below this paragraph, {{ABSTRACT_PUBMED_11504879}}, adds the Publication Abstract to the page
+(as it appears on PubMed at http://www.pubmed.gov), where 11504879 is the PubMed ID number.
+-->
+{{ABSTRACT_PUBMED_11504879}}
 ==About this Structure==
-Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G5D OCA].
+Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1G5D OCA].
 ==Reference==
@@ Line 25: / Line 29: @@
 [[Category: Apyrimidinic site]]
 [[Category: Damaged dna]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May  2 17:09:25 2008''
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul  1 04:27:22 2008''