121d: Difference between revisions
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|PDB= 121d |SIZE=350|CAPTION= <scene name='initialview01'>121d</scene>, resolution 2.200Å | |PDB= 121d |SIZE=350|CAPTION= <scene name='initialview01'>121d</scene>, resolution 2.200Å | ||
|SITE= | |SITE= | ||
|LIGAND= <scene name='pdbligand=NT:NETROPSIN'>NT</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=NT:NETROPSIN'>NT</scene> | ||
|ACTIVITY= | |ACTIVITY= | ||
|GENE= | |GENE= | ||
|DOMAIN= | |||
|RELATEDENTRY= | |||
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=121d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=121d OCA], [http://www.ebi.ac.uk/pdbsum/121d PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=121d RCSB]</span> | |||
}} | }} | ||
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[[Category: Tabernero, L.]] | [[Category: Tabernero, L.]] | ||
[[Category: Verdaguer, N.]] | [[Category: Verdaguer, N.]] | ||
[[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 18:27:09 2008'' | ||
Revision as of 18:27, 30 March 2008
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| , resolution 2.200Å | |||||||
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| Ligands: | , , , , | ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
MOLECULAR STRUCTURE OF THE A-TRACT DNA DODECAMER D(CGCAAATTTGCG) COMPLEXED WITH THE MINOR GROOVE BINDING DRUG NETROPSIN
OverviewOverview
The molecular structure of the complex between the minor groove binding drug netropsin and the dodecamer d(CGCAAATTTGCG) has been solved and refined by X-ray diffraction analysis to an R-factor of 19.8% and 2.2-A resolution. The drug lies in the narrow minor groove of the B-DNA fragment, covering five of the six A.T base pairs (from A5.T20 to T9.A16). The long six A.T base pair tract allows the drug to bind in a position that optimizes its contacts with the DNA, establishing hydrogen bonds with O2 of thymines and N3 of adenines. The DNA molecule shows a high propeller twist only at the A6.T19 step of the A-tract. Two three-centered hydrogen bonds are observed in the major groove at half of the A-tract.
About this StructureAbout this Structure
121D is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
ReferenceReference
Molecular structure of the A-tract DNA dodecamer d(CGCAAATTTGCG) complexed with the minor groove binding drug netropsin., Tabernero L, Verdaguer N, Coll M, Fita I, van der Marel GA, van Boom JH, Rich A, Aymami J, Biochemistry. 1993 Aug 24;32(33):8403-10. PMID:8395202
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