1k61
From Proteopedia
(New page: 200px<br /><applet load="1k61" size="450" color="white" frame="true" align="right" spinBox="true" caption="1k61, resolution 2.10Å" /> '''MATALPHA2 HOMEODOMAI...) |
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| - | [[Image:1k61.gif|left|200px]]<br /><applet load="1k61" size=" | + | [[Image:1k61.gif|left|200px]]<br /><applet load="1k61" size="350" color="white" frame="true" align="right" spinBox="true" |
caption="1k61, resolution 2.10Å" /> | caption="1k61, resolution 2.10Å" /> | ||
'''MATALPHA2 HOMEODOMAIN BOUND TO DNA'''<br /> | '''MATALPHA2 HOMEODOMAIN BOUND TO DNA'''<br /> | ||
==Overview== | ==Overview== | ||
| - | Hoogsteen base pairs within duplex DNA typically are only observed in | + | Hoogsteen base pairs within duplex DNA typically are only observed in regions containing significant distortion or near sites of drug intercalation. We report here the observation of a Hoogsteen base pair embedded within undistorted, unmodified B-DNA. The Hoogsteen base pair, consisting of a syn adenine base paired with an anti thymine base, is found in the 2.1 A resolution structure of the MATalpha2 homeodomain bound to DNA in a region where a specifically and a non-specifically bound homeodomain contact overlapping sites. NMR studies of the free DNA show no evidence of Hoogsteen base pair formation, suggesting that protein binding favors the transition from a Watson-Crick to a Hoogsteen base pair. Molecular dynamics simulations of the homeodomain-DNA complex support a role for the non-specifically bound protein in favoring Hoogsteen base pair formation. The presence of a Hoogsteen base pair in the crystal structure of a protein-DNA complex raises the possibility that Hoogsteen base pairs could occur within duplex DNA and play a hitherto unrecognized role in transcription, replication and other cellular processes. |
==About this Structure== | ==About this Structure== | ||
| - | 1K61 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http:// | + | 1K61 is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1K61 OCA]. |
==Reference== | ==Reference== | ||
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[[Category: Single protein]] | [[Category: Single protein]] | ||
[[Category: Aishima, J.]] | [[Category: Aishima, J.]] | ||
| - | [[Category: Gan, H | + | [[Category: Gan, H H.]] |
| - | [[Category: Gitti, R | + | [[Category: Gitti, R K.]] |
| - | [[Category: Noah, J | + | [[Category: Noah, J E.]] |
[[Category: Schlick, T.]] | [[Category: Schlick, T.]] | ||
[[Category: Wolberger, C.]] | [[Category: Wolberger, C.]] | ||
| Line 22: | Line 22: | ||
[[Category: protein-dna complex]] | [[Category: protein-dna complex]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 13:30:33 2008'' |
Revision as of 11:30, 21 February 2008
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MATALPHA2 HOMEODOMAIN BOUND TO DNA
Overview
Hoogsteen base pairs within duplex DNA typically are only observed in regions containing significant distortion or near sites of drug intercalation. We report here the observation of a Hoogsteen base pair embedded within undistorted, unmodified B-DNA. The Hoogsteen base pair, consisting of a syn adenine base paired with an anti thymine base, is found in the 2.1 A resolution structure of the MATalpha2 homeodomain bound to DNA in a region where a specifically and a non-specifically bound homeodomain contact overlapping sites. NMR studies of the free DNA show no evidence of Hoogsteen base pair formation, suggesting that protein binding favors the transition from a Watson-Crick to a Hoogsteen base pair. Molecular dynamics simulations of the homeodomain-DNA complex support a role for the non-specifically bound protein in favoring Hoogsteen base pair formation. The presence of a Hoogsteen base pair in the crystal structure of a protein-DNA complex raises the possibility that Hoogsteen base pairs could occur within duplex DNA and play a hitherto unrecognized role in transcription, replication and other cellular processes.
About this Structure
1K61 is a Single protein structure of sequence from [1]. Full crystallographic information is available from OCA.
Reference
A Hoogsteen base pair embedded in undistorted B-DNA., Aishima J, Gitti RK, Noah JE, Gan HH, Schlick T, Wolberger C, Nucleic Acids Res. 2002 Dec 1;30(23):5244-52. PMID:12466549
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