1jo2
From Proteopedia
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|PDB= 1jo2 |SIZE=350|CAPTION= <scene name='initialview01'>1jo2</scene>, resolution 1.50Å | |PDB= 1jo2 |SIZE=350|CAPTION= <scene name='initialview01'>1jo2</scene>, resolution 1.50Å | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand=DM1:DAUNOMYCIN'>DM1</scene> | + | |LIGAND= <scene name='pdbligand=DA:2'-DEOXYADENOSINE-5'-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DM1:DAUNOMYCIN'>DM1</scene>, <scene name='pdbligand=DT:THYMIDINE-5'-MONOPHOSPHATE'>DT</scene> |
|ACTIVITY= | |ACTIVITY= | ||
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY= | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1jo2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1jo2 OCA], [http://www.ebi.ac.uk/pdbsum/1jo2 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1jo2 RCSB]</span> | ||
}} | }} | ||
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[[Category: Shi, K.]] | [[Category: Shi, K.]] | ||
[[Category: Sundaralingam, M.]] | [[Category: Sundaralingam, M.]] | ||
| - | [[Category: DM1]] | ||
[[Category: dna/rna chimer]] | [[Category: dna/rna chimer]] | ||
[[Category: intercalation]] | [[Category: intercalation]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 21:36:24 2008'' |
Revision as of 18:36, 30 March 2008
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| , resolution 1.50Å | |||||||
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| Ligands: | , , , , | ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
Crystal Structure of the B-DNA Hexamer (CgATCG).Daunomycin Complex Containing a Ribose at the Intercalation Site
Overview
The crystal structure of a DNA/RNA chimera (dC)(rG)d(ATCG) complexed with the anticancer drug daunomycin has been determined at 1.5 A resolution with R(work) and R(free) of 19.7 and 23.3%, respectively, for 2767 reflections. The complex crystallizes in space group P4(1)2(1)2, with unit-cell parameters a = b = 28.05, c = 53.16 A, and contains one nucleic acid strand and one daunomycin molecule in the asymmetric unit. To our knowledge, this is the first crystal structure of a DNA/RNA chimera complexed with an intercalating drug. The DNA/RNA chimera adopts the B-form helical conformation, with the 2'-hydroxyl group in the major groove of the duplex, forming hydrogen bonds to N7 and the anionic phosphate oxygen of its 3'-side adenine. The present results indicate that the replacement by the ribose sugar in the DNA sequence does not change the geometry and intercalation pattern of daunomycin. A model of B-form RNA has been built based on the present structure. The model indicates that the interactions of the 2'-hydroxyl groups in the B-form duplex depend on their 3'-side nucleotides.
About this Structure
1JO2 is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
Structure of a B-form DNA/RNA chimera (dC)(rG)d(ATCG) complexed with daunomycin at 1.5 A resolution., Shi K, Pan B, Sundaralingam M, Acta Crystallogr D Biol Crystallogr. 2003 Aug;59(Pt 8):1377-83. Epub 2003, Jul 23. PMID:12876339
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