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.


237d

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (09:09, 14 February 2024) (edit) (undo)
 
(13 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:237d.jpg|left|200px]]<br /><applet load="237d" size="350" color="white" frame="true" align="right" spinBox="true"
 
-
caption="237d, resolution 2.500&Aring;" />
 
-
'''CRYSTAL STRUCTURE OF A DNA DECAMER SHOWING A NOVEL PSEUDO FOUR-WAY HELIX-HELIX JUNCTION'''<br />
 
-
==Overview==
+
==CRYSTAL STRUCTURE OF A DNA DECAMER SHOWING A NOVEL PSEUDO FOUR-WAY HELIX-HELIX JUNCTION==
-
The crystal structure of the decanucleotide d(CGCAATTGCG)2 has been solved by a combination of molecular replacement and heavy-atom procedures and has been refined to an R factor of 20.2% at 2.7 A. It is not a fully base-paired duplex but has a central core of eight Watson-Crick base pairs flanked by unpaired terminal guanosines and cytosines. These participate in hydrogen-bonding arrangements with adjacent decamer duplexes in the crystal lattice. The unpaired guanosines are bound in the G+C regions of duplex minor grooves. The cytosines have relatively high mobility, even though they are constrained to be in one region where they are involved in base-paired triplets with G.C base pairs. The 5'-AATT sequence in the duplex region has a narrow minor groove, providing further confirmation of the sequence-dependent nature of groove width.
+
<StructureSection load='237d' size='340' side='right'caption='[[237d]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
-
 
+
== Structural highlights ==
-
==About this Structure==
+
<table><tr><td colspan='2'>[[237d]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=237D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=237D FirstGlance]. <br>
-
237D is a [http://en.wikipedia.org/wiki/Protein_complex 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=237D OCA].
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.5&#8491;</td></tr>
-
 
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=237d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=237d OCA], [https://pdbe.org/237d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=237d RCSB], [https://www.ebi.ac.uk/pdbsum/237d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=237d ProSAT]</span></td></tr>
-
==Reference==
+
</table>
-
Crystal structure of a DNA decamer showing a novel pseudo four-way helix-helix junction., Spink N, Nunn CM, Vojtechovsky J, Berman HM, Neidle S, Proc Natl Acad Sci U S A. 1995 Nov 7;92(23):10767-71. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=7479880 7479880]
+
__TOC__
-
[[Category: Protein complex]]
+
</StructureSection>
-
[[Category: Berman, H M.]]
+
[[Category: Large Structures]]
-
[[Category: Neidle, S.]]
+
[[Category: Berman HM]]
-
[[Category: Nunn, C M.]]
+
[[Category: Neidle S]]
-
[[Category: Spink, N.]]
+
[[Category: Nunn CM]]
-
[[Category: Vojtechovsky, J.]]
+
[[Category: Spink N]]
-
[[Category: b-dna]]
+
[[Category: Vojtechovsky J]]
-
[[Category: double helix]]
+
-
[[Category: flipped-out bases]]
+
-
[[Category: intermolecular base triplet]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 16:21:30 2008''
+

Current revision

CRYSTAL STRUCTURE OF A DNA DECAMER SHOWING A NOVEL PSEUDO FOUR-WAY HELIX-HELIX JUNCTION

PDB ID 237d

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/237d"
Personal tools