401d
From Proteopedia
| Line 4: | Line 4: | ||
|PDB= 401d |SIZE=350|CAPTION= <scene name='initialview01'>401d</scene>, resolution 2.200Å | |PDB= 401d |SIZE=350|CAPTION= <scene name='initialview01'>401d</scene>, resolution 2.200Å | ||
|SITE= | |SITE= | ||
| - | |LIGAND= | + | |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> |
|ACTIVITY= | |ACTIVITY= | ||
|GENE= | |GENE= | ||
| + | |DOMAIN= | ||
| + | |RELATEDENTRY= | ||
| + | |RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=401d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=401d OCA], [http://www.ebi.ac.uk/pdbsum/401d PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=401d RCSB]</span> | ||
}} | }} | ||
| Line 25: | Line 28: | ||
[[Category: dna double helix]] | [[Category: dna double helix]] | ||
| - | ''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 05:36:46 2008'' |
Revision as of 02:36, 31 March 2008
| |||||||
| , resolution 2.200Å | |||||||
|---|---|---|---|---|---|---|---|
| Ligands: | , , , | ||||||
| Resources: | FirstGlance, OCA, PDBsum, RCSB | ||||||
| Coordinates: | save as pdb, mmCIF, xml | ||||||
STRUCTURE OF A DNA IN LOW SALT CONDITIONS D(GACCGCGGTC)
Overview
The X-ray crystal structure of the DNA decamer d(GACCGCGGTC), containing half the human papilloma virus E2 binding site, has been solved from two crystals grown at different ionic conditions (50 mM MgCl2and 50 mM spermine or 1.56 mM MgCl2and 1.56 mM spermine). Despite the variation in salt concentration, the two DNA structures are in a very similar, A-type DNA conformation, with helical axes curving towards the major groove. Although the salt concentrations do not effect the helical parameters or hydration to a large degree, there is a change in the overall helical curvature; 18 degrees and 31 degrees for the low and high salt structures, respectively. This curvature appears to be sequence specific and biologically relevant when compared with similar DNA structures, including the E2 binding site of a protein-DNA complex.
About this Structure
401D is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
X-ray crystal structures of half the human papilloma virus E2 binding site: d(GACCGCGGTC)., Finley JB, Luo M, Nucleic Acids Res. 1998 Dec 15;26(24):5719-27. PMID:9838004
Page seeded by OCA on Mon Mar 31 05:36:46 2008
