1d64: Difference between revisions

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, resolution 2.100Å

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CRYSTAL STRUCTURE OF A PENTAMIDINE-OLIGONUCLEOTIDE COMPLEX: IMPLICATIONS FOR DNA-BINDING PROPERTIES

OverviewOverview

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 StructureAbout this Structure

1D64 is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.

ReferenceReference

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

Page seeded by OCA on Thu Mar 20 10:33:25 2008

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 1: / Line 1: @@
-[[Image:1d64.gif|left|200px]]<br /><applet load="1d64" size="350" color="white" frame="true" align="right" spinBox="true"
+[[Image:1d64.gif|left|200px]]
-caption="1d64, resolution 2.100&Aring;" />
-'''CRYSTAL STRUCTURE OF A PENTAMIDINE-OLIGONUCLEOTIDE COMPLEX: IMPLICATIONS FOR DNA-BINDING PROPERTIES'''<br />
+ {{Structure
+|PDB= 1d64 |SIZE=350|CAPTION= <scene name='initialview01'>1d64</scene>, resolution 2.100&Aring;
+|SITE=
+|LIGAND= <scene name='pdbligand=PNT:1,3-BIS(4-AMIDINOPHENOXY)PENTANE'>PNT</scene>
+|ACTIVITY=
+|GENE=
+}}
+'''CRYSTAL STRUCTURE OF A PENTAMIDINE-OLIGONUCLEOTIDE COMPLEX: IMPLICATIONS FOR DNA-BINDING PROPERTIES'''
 ==Overview==
@@ Line 7: / Line 16: @@
 ==About this Structure==
-D64 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=PNT:'>PNT</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D64 OCA].
+D64 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=1D64 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:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=1643044 1643044]
+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:[http://www.ncbi.nlm.nih.gov/pubmed/1643044 1643044]
 [[Category: Protein complex]]
 [[Category: Edwards, K J.]]
@@ Line 20: / Line 29: @@
 [[Category: double helix]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 12:13:23 2008''
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 10:33:25 2008''