1prp
From Proteopedia
(New page: 200px<br /><applet load="1prp" size="450" color="white" frame="true" align="right" spinBox="true" caption="1prp, resolution 2.100Å" /> '''CRYSTAL STRUCTURE O...) |
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| - | [[Image:1prp.jpg|left|200px]]<br /><applet load="1prp" size=" | + | [[Image:1prp.jpg|left|200px]]<br /><applet load="1prp" size="350" color="white" frame="true" align="right" spinBox="true" |
caption="1prp, resolution 2.100Å" /> | caption="1prp, resolution 2.100Å" /> | ||
'''CRYSTAL STRUCTURE OF D(CGCGAATTCGCG) COMPLEXED WITH PROPAMIDINE, A SHORT-CHAIN HOMOLOGUE OF THE DRUG PENTAMIDIN'''<br /> | '''CRYSTAL STRUCTURE OF D(CGCGAATTCGCG) COMPLEXED WITH PROPAMIDINE, A SHORT-CHAIN HOMOLOGUE OF THE DRUG PENTAMIDIN'''<br /> | ||
==Overview== | ==Overview== | ||
| - | The crystal structure of the complex between propamidine and the | + | The crystal structure of the complex between propamidine and the self-complementary DNA dodecamer d(CGCGAATTCGCG) duplex has been determined to a resolution of 2.1 A and a R-factor of 17.4%. The propamidine binds to the DNA within the minor groove, with specific hydrogen-bonding interactions from the amidinium groups to the bases and sugar groups of the DNA, via a 4-base-pair binding site. A network of water molecules lies over the mouth of the minor groove. The structure provides a rationale for the superior DNA-binding properties of propamidine as compared to pentamidine [cf. Edwards, K. J., Jenkins, T. C. & Neidle, S. (1992) Biochemistry 31, 7104-7109]. This is seen to result from (i) decreased minor groove width at the binding site and (ii) reduced mobility of the bound propamidine molecule. |
==About this Structure== | ==About this Structure== | ||
| - | 1PRP is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with TNT as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http:// | + | 1PRP is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=TNT:'>TNT</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1PRP OCA]. |
==Reference== | ==Reference== | ||
Crystal structure of d(CGCGAATTCGCG) complexed with propamidine, a short-chain homologue of the drug pentamidine., Nunn CM, Jenkins TC, Neidle S, Biochemistry. 1993 Dec 21;32(50):13838-43. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=8268158 8268158] | Crystal structure of d(CGCGAATTCGCG) complexed with propamidine, a short-chain homologue of the drug pentamidine., Nunn CM, Jenkins TC, Neidle S, Biochemistry. 1993 Dec 21;32(50):13838-43. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=8268158 8268158] | ||
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
| - | [[Category: Jenkins, T | + | [[Category: Jenkins, T C.]] |
[[Category: Neidle, S.]] | [[Category: Neidle, S.]] | ||
| - | [[Category: Nunn, C | + | [[Category: Nunn, C M.]] |
[[Category: TNT]] | [[Category: TNT]] | ||
[[Category: b-dna]] | [[Category: b-dna]] | ||
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[[Category: double helix]] | [[Category: double helix]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 14:31:51 2008'' |
Revision as of 12:31, 21 February 2008
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CRYSTAL STRUCTURE OF D(CGCGAATTCGCG) COMPLEXED WITH PROPAMIDINE, A SHORT-CHAIN HOMOLOGUE OF THE DRUG PENTAMIDIN
Overview
The crystal structure of the complex between propamidine and the self-complementary DNA dodecamer d(CGCGAATTCGCG) duplex has been determined to a resolution of 2.1 A and a R-factor of 17.4%. The propamidine binds to the DNA within the minor groove, with specific hydrogen-bonding interactions from the amidinium groups to the bases and sugar groups of the DNA, via a 4-base-pair binding site. A network of water molecules lies over the mouth of the minor groove. The structure provides a rationale for the superior DNA-binding properties of propamidine as compared to pentamidine [cf. Edwards, K. J., Jenkins, T. C. & Neidle, S. (1992) Biochemistry 31, 7104-7109]. This is seen to result from (i) decreased minor groove width at the binding site and (ii) reduced mobility of the bound propamidine molecule.
About this Structure
1PRP is a Protein complex structure of sequences from [1] with as ligand. Full crystallographic information is available from OCA.
Reference
Crystal structure of d(CGCGAATTCGCG) complexed with propamidine, a short-chain homologue of the drug pentamidine., Nunn CM, Jenkins TC, Neidle S, Biochemistry. 1993 Dec 21;32(50):13838-43. PMID:8268158
Page seeded by OCA on Thu Feb 21 14:31:51 2008
