121d

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[[Image:121d.jpg|left|200px]]
[[Image:121d.jpg|left|200px]]
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{{Structure
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|PDB= 121d |SIZE=350|CAPTION= <scene name='initialview01'>121d</scene>, resolution 2.200&Aring;
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The line below this paragraph, containing "STRUCTURE_121d", creates the "Structure Box" on the page.
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|SITE=
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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|LIGAND= <scene name='pdbligand=DA:2&#39;-DEOXYADENOSINE-5&#39;-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2&#39;-DEOXYCYTIDINE-5&#39;-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2&#39;-DEOXYGUANOSINE-5&#39;-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DT:THYMIDINE-5&#39;-MONOPHOSPHATE'>DT</scene>, <scene name='pdbligand=NT:NETROPSIN'>NT</scene>
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|ACTIVITY=
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|DOMAIN=
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{{STRUCTURE_121d| PDB=121d | SCENE= }}
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|RELATEDENTRY=
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=121d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=121d OCA], [http://www.ebi.ac.uk/pdbsum/121d PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=121d RCSB]</span>
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'''MOLECULAR STRUCTURE OF THE A-TRACT DNA DODECAMER D(CGCAAATTTGCG) COMPLEXED WITH THE MINOR GROOVE BINDING DRUG NETROPSIN'''
'''MOLECULAR STRUCTURE OF THE A-TRACT DNA DODECAMER D(CGCAAATTTGCG) COMPLEXED WITH THE MINOR GROOVE BINDING DRUG NETROPSIN'''
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==About this Structure==
==About this Structure==
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121D is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=121D OCA].
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Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=121D OCA].
==Reference==
==Reference==
Molecular structure of the A-tract DNA dodecamer d(CGCAAATTTGCG) complexed with the minor groove binding drug netropsin., Tabernero L, Verdaguer N, Coll M, Fita I, van der Marel GA, van Boom JH, Rich A, Aymami J, Biochemistry. 1993 Aug 24;32(33):8403-10. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/8395202 8395202]
Molecular structure of the A-tract DNA dodecamer d(CGCAAATTTGCG) complexed with the minor groove binding drug netropsin., Tabernero L, Verdaguer N, Coll M, Fita I, van der Marel GA, van Boom JH, Rich A, Aymami J, Biochemistry. 1993 Aug 24;32(33):8403-10. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/8395202 8395202]
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[[Category: Protein complex]]
 
[[Category: Aymami, J.]]
[[Category: Aymami, J.]]
[[Category: Boom, J H.Van.]]
[[Category: Boom, J H.Van.]]
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[[Category: Tabernero, L.]]
[[Category: Tabernero, L.]]
[[Category: Verdaguer, N.]]
[[Category: Verdaguer, N.]]
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[[Category: b-dna]]
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[[Category: B-dna]]
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[[Category: complexed with drug]]
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[[Category: Complexed with drug]]
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[[Category: double helix]]
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[[Category: Double helix]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 09:27:42 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 18:27:09 2008''
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Revision as of 06:27, 2 May 2008

Image:121d.jpg

Template:STRUCTURE 121d

MOLECULAR STRUCTURE OF THE A-TRACT DNA DODECAMER D(CGCAAATTTGCG) COMPLEXED WITH THE MINOR GROOVE BINDING DRUG NETROPSIN


Overview

The molecular structure of the complex between the minor groove binding drug netropsin and the dodecamer d(CGCAAATTTGCG) has been solved and refined by X-ray diffraction analysis to an R-factor of 19.8% and 2.2-A resolution. The drug lies in the narrow minor groove of the B-DNA fragment, covering five of the six A.T base pairs (from A5.T20 to T9.A16). The long six A.T base pair tract allows the drug to bind in a position that optimizes its contacts with the DNA, establishing hydrogen bonds with O2 of thymines and N3 of adenines. The DNA molecule shows a high propeller twist only at the A6.T19 step of the A-tract. Two three-centered hydrogen bonds are observed in the major groove at half of the A-tract.

About this Structure

Full crystallographic information is available from OCA.

Reference

Molecular structure of the A-tract DNA dodecamer d(CGCAAATTTGCG) complexed with the minor groove binding drug netropsin., Tabernero L, Verdaguer N, Coll M, Fita I, van der Marel GA, van Boom JH, Rich A, Aymami J, Biochemistry. 1993 Aug 24;32(33):8403-10. PMID:8395202 Page seeded by OCA on Fri May 2 09:27:42 2008

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