407d
From Proteopedia
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|PDB= 407d |SIZE=350|CAPTION= <scene name='initialview01'>407d</scene>, resolution 2.200Å | |PDB= 407d |SIZE=350|CAPTION= <scene name='initialview01'>407d</scene>, resolution 2.200Å | ||
|SITE= | |SITE= | ||
| - | |LIGAND= <scene name='pdbligand=HP1:IMIDAZOLE-PYRROLE-HYDROXYPYRROLE+POLYAMIDE'>HP1</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=HP1:IMIDAZOLE-PYRROLE-HYDROXYPYRROLE+POLYAMIDE'>HP1</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene> |
|ACTIVITY= | |ACTIVITY= | ||
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY= | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=407d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=407d OCA], [http://www.ebi.ac.uk/pdbsum/407d PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=407d RCSB]</span> | ||
}} | }} | ||
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[[Category: Protein complex]] | [[Category: Protein complex]] | ||
[[Category: Rees]] | [[Category: Rees]] | ||
| - | [[Category: HP1]] | ||
| - | [[Category: TRS]] | ||
[[Category: drugs in the dna minor groove]] | [[Category: drugs in the dna minor groove]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 05:36:50 2008'' |
Revision as of 02:36, 31 March 2008
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| , resolution 2.200Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , , , , , | ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
STRUCTURAL BASIS FOR RECOGNITION OF A-T AND T-A BASE PAIRS IN THE MINOR GROOVE OF B-DNA
Overview
Polyamide dimers containing three types of aromatic rings-pyrrole, imidazole, and hydroxypyrrole-afford a small-molecule recognition code that discriminates among all four Watson-Crick base pairs in the minor groove. The crystal structure of a specific polyamide dimer-DNA complex establishes the structural basis for distinguishing T.A from A.T base pairs. Specificity for the T.A base pair is achieved by means of distinct hydrogen bonds between pairs of substituted pyrroles on the ligand and the O2 of thymine and N3 of adenine. In addition, shape-selective recognition of an asymmetric cleft between the thymine-O2 and the adenine-C2 was observed. Although hitherto similarities among the base pairs in the minor groove have been emphasized, the structure illustrates differences that allow specific minor groove recognition.
About this Structure
407D is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
A structural basis for recognition of A.T and T.A base pairs in the minor groove of B-DNA., Kielkopf CL, White S, Szewczyk JW, Turner JM, Baird EE, Dervan PB, Rees DC, Science. 1998 Oct 2;282(5386):111-5. PMID:9756473
Page seeded by OCA on Mon Mar 31 05:36:50 2008
