328d

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[[Image:328d.jpg|left|200px]]
[[Image:328d.jpg|left|200px]]
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{{Structure
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|PDB= 328d |SIZE=350|CAPTION= <scene name='initialview01'>328d</scene>, resolution 2.600&Aring;
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The line below this paragraph, containing "STRUCTURE_328d", 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=SN7:4-[4-[2-AMINO-4-[4,6-(N-METHYLQUINOLINIUM)AMINO]BENZAMIDO]ANILINO]-N-METHYLPYRIDINIUM+MESYLATE'>SN7</scene>
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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|ACTIVITY=
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or leave the SCENE parameter empty for the default display.
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|GENE=
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|DOMAIN=
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{{STRUCTURE_328d| PDB=328d | 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=328d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=328d OCA], [http://www.ebi.ac.uk/pdbsum/328d PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=328d RCSB]</span>
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'''STRUCTURE OF A D(CGCGAATTCGCG)2-SN7167 COMPLEX'''
'''STRUCTURE OF A D(CGCGAATTCGCG)2-SN7167 COMPLEX'''
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==About this Structure==
==About this Structure==
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328D 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=328D OCA].
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Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=328D OCA].
==Reference==
==Reference==
Minor groove binding of a bis-quaternary ammonium compound: the crystal structure of SN 7167 bound to d(CGCGAATTCGCG)2., Squire CJ, Clark GR, Denny WA, Nucleic Acids Res. 1997 Oct 15;25(20):4072-8. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/9321660 9321660]
Minor groove binding of a bis-quaternary ammonium compound: the crystal structure of SN 7167 bound to d(CGCGAATTCGCG)2., Squire CJ, Clark GR, Denny WA, Nucleic Acids Res. 1997 Oct 15;25(20):4072-8. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/9321660 9321660]
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[[Category: Protein complex]]
 
[[Category: Clark, G R.]]
[[Category: Clark, G R.]]
[[Category: Denny, W A.]]
[[Category: Denny, W A.]]
[[Category: Squire, C J.]]
[[Category: Squire, C J.]]
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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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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May 4 20:15:51 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 05:21:23 2008''
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Revision as of 17:15, 4 May 2008

Image:328d.jpg

Template:STRUCTURE 328d

STRUCTURE OF A D(CGCGAATTCGCG)2-SN7167 COMPLEX


Overview

The X-ray crystal structure of the complex between the synthetic antitumour and antiviral DNA binding ligand SN 7167 and the DNA oligonucleotide d(CGCGAATTCGCG)2 has been determined to an R factor of 18.3% at 2.6 A resolution. The ligand is located within the minor groove and covers almost 6 bp with the 1-methylpyridinium ring extending as far as the C9-G16 base pair and the 1-methylquinolinium ring lying between the G4-C21 and A5-T20 base pairs. The ligand interacts only weakly with the DNA, as evidenced by long range contacts and shallow penetration into the groove. This structure is compared with that of the complex between the parent compound SN 6999 and the alkylated DNA sequence d(CGC[e6G]AATTCGCG)2. There are significant differences between the two structures in the extent of DNA bending, ligand conformation and groove binding.

About this Structure

Full crystallographic information is available from OCA.

Reference

Minor groove binding of a bis-quaternary ammonium compound: the crystal structure of SN 7167 bound to d(CGCGAATTCGCG)2., Squire CJ, Clark GR, Denny WA, Nucleic Acids Res. 1997 Oct 15;25(20):4072-8. PMID:9321660 Page seeded by OCA on Sun May 4 20:15:51 2008

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