This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.


401d

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (10:35, 1 March 2024) (edit) (undo)
 
(9 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:401d.gif|left|200px]]
 
-
{{Structure
+
==STRUCTURE OF A DNA IN LOW SALT CONDITIONS D(GACCGCGGTC)==
-
|PDB= 401d |SIZE=350|CAPTION= <scene name='initialview01'>401d</scene>, resolution 2.200&Aring;
+
<StructureSection load='401d' size='340' side='right'caption='[[401d]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
-
|SITE=
+
== Structural highlights ==
-
|LIGAND=
+
<table><tr><td colspan='2'>[[401d]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=401D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=401D FirstGlance]. <br>
-
|ACTIVITY=
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.2&#8491;</td></tr>
-
|GENE=
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=401d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=401d OCA], [https://pdbe.org/401d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=401d RCSB], [https://www.ebi.ac.uk/pdbsum/401d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=401d ProSAT]</span></td></tr>
-
}}
+
</table>
-
 
+
__TOC__
-
'''STRUCTURE OF A DNA IN LOW SALT CONDITIONS D(GACCGCGGTC)'''
+
</StructureSection>
-
 
+
[[Category: Large Structures]]
-
 
+
[[Category: Finley JB]]
-
==Overview==
+
[[Category: Luo M]]
-
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 [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=401D 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:[http://www.ncbi.nlm.nih.gov/pubmed/9838004 9838004]
+
-
[[Category: Protein complex]]
+
-
[[Category: Finley, J B.]]
+
-
[[Category: Luo, M.]]
+
-
[[Category: dna double helix]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 19:07:50 2008''
+

Current revision

STRUCTURE OF A DNA IN LOW SALT CONDITIONS D(GACCGCGGTC)

PDB ID 401d

Drag the structure with the mouse to rotate

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/401d"
Personal tools