1d64
From Proteopedia
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|PDB= 1d64 |SIZE=350|CAPTION= <scene name='initialview01'>1d64</scene>, resolution 2.100Å | |PDB= 1d64 |SIZE=350|CAPTION= <scene name='initialview01'>1d64</scene>, resolution 2.100Å | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand=PNT:1,3-BIS(4-AMIDINOPHENOXY)PENTANE'>PNT</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=DT:THYMIDINE-5'-MONOPHOSPHATE'>DT</scene>, <scene name='pdbligand=PNT:1,3-BIS(4-AMIDINOPHENOXY)PENTANE'>PNT</scene> |
|ACTIVITY= | |ACTIVITY= | ||
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY= | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1d64 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d64 OCA], [http://www.ebi.ac.uk/pdbsum/1d64 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1d64 RCSB]</span> | ||
}} | }} | ||
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[[Category: Jenkins, T C.]] | [[Category: Jenkins, T C.]] | ||
[[Category: Neidle, S.]] | [[Category: Neidle, S.]] | ||
| - | [[Category: PNT]] | ||
[[Category: b-dna]] | [[Category: b-dna]] | ||
[[Category: complexed with drug]] | [[Category: complexed with drug]] | ||
[[Category: double helix]] | [[Category: double helix]] | ||
| - | ''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 19:35:28 2008'' |
Revision as of 16:35, 30 March 2008
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| , resolution 2.100Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , , , , | ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
CRYSTAL STRUCTURE OF A PENTAMIDINE-OLIGONUCLEOTIDE COMPLEX: IMPLICATIONS FOR DNA-BINDING PROPERTIES
Overview
The crystal structure of the complex formed between the dodecanucleotide d(CGCGAATTCGCG)2 and the drug pentamidine, which is active against the Pneumocystis carinii pathogen in AIDS patients, has been determined to a resolution of 2.1 A and an R-factor of 19.4%. Analysis of the structure has shown the drug to be bound in the 5'-AATT minor groove region of the duplex, with the amidinium groups H-bonded to adenine N3 atoms in an interstrand manner. The drug molecule adopts an extended conformation, and the immediate binding site spans four base pairs. Structural details of the drug-DNA interactions are discussed, and comparison is made with the dodecamer complex of the structurally similar berenil ligand.
About this Structure
1D64 is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
Crystal structure of a pentamidine-oligonucleotide complex: implications for DNA-binding properties., Edwards KJ, Jenkins TC, Neidle S, Biochemistry. 1992 Aug 11;31(31):7104-9. PMID:1643044
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