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.


1d99

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (06:50, 7 February 2024) (edit) (undo)
 
(10 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1d99.gif|left|200px]]
 
-
<!--
+
==STRUCTURAL FEATURES AND HYDRATION OF A DODECAMER DUPLEX CONTAINING TWO C.A MISPAIRS==
-
The line below this paragraph, containing "STRUCTURE_1d99", creates the "Structure Box" on the page.
+
<StructureSection load='1d99' size='340' side='right'caption='[[1d99]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
-
You may change the PDB parameter (which sets the PDB file loaded into the applet)
+
== Structural highlights ==
-
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+
<table><tr><td colspan='2'>[[1d99]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D99 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1D99 FirstGlance]. <br>
-
or leave the SCENE parameter empty for the default display.
+
</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=1d99 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1d99 OCA], [https://pdbe.org/1d99 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1d99 RCSB], [https://www.ebi.ac.uk/pdbsum/1d99 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1d99 ProSAT]</span></td></tr>
-
{{STRUCTURE_1d99| PDB=1d99 | SCENE= }}
+
</table>
-
 
+
__TOC__
-
'''STRUCTURAL FEATURES AND HYDRATION OF A DODECAMER DUPLEX CONTAINING TWO C.A MISPAIRS'''
+
</StructureSection>
-
 
+
[[Category: Large Structures]]
-
 
+
[[Category: Brown T]]
-
==Overview==
+
[[Category: Hunter WN]]
-
X-ray diffraction techniques have been used to characterise the crystal and molecular structure of the deoxyoligomer d(C-G-C-A-A-A-T-T-C-G-C-G) at 2.5A resolution. The final R factor is 0.19 with the location of 78 solvent molecules. The oligomer crystallises in a B-DNA type conformation with two strands coiled about each other to produce a duplex. This double helix consists of four A.T and six G.C Watson-Crick base pairs and two C.A mispairs. The mismatched base pairs adopt a "wobble" type structure with the cytosine displaced laterally into the major groove, the adenine into the minor groove. We have proposed that the two close contacts observed in the C.A pairing represent two hydrogen bonds one of which results from protonation of adenine. The mispairs are accommodated in the double helix with small adjustments in the conformation of the sugar-phosphate backbone. Details of the backbone conformation, base stacking interactions, thermal parameters and the hydration are now presented and compared with those of the native oligomer d(C-G-C-G-A-A-T-T-C-G-C-G) and with variations of this sequence containing G.T and G.A mispairs.
+
[[Category: Kennard O]]
-
 
+
-
==About this Structure==
+
-
Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1D99 OCA].
+
-
 
+
-
==Reference==
+
-
Structural features and hydration of a dodecamer duplex containing two C.A mispairs., Hunter WN, Brown T, Kennard O, Nucleic Acids Res. 1987 Aug 25;15(16):6589-606. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/3627999 3627999]
+
-
[[Category: Brown, T.]]
+
-
[[Category: Hunter, W N.]]
+
-
[[Category: Kennard, O.]]
+
-
[[Category: B-dna]]
+
-
[[Category: Double helix]]
+
-
[[Category: Mismatched]]
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Fri May 2 13:35:31 2008''
+

Current revision

STRUCTURAL FEATURES AND HYDRATION OF A DODECAMER DUPLEX CONTAINING TWO C.A MISPAIRS

PDB ID 1d99

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/1d99"
Personal tools