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.


114d

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (06:24, 7 February 2024) (edit) (undo)
 
(13 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:114d.gif|left|200px]]<br /><applet load="114d" size="350" color="white" frame="true" align="right" spinBox="true"
 
-
caption="114d, resolution 2.500&Aring;" />
 
-
'''INOSINE-ADENINE BASE PAIRS IN A B-DNA DUPLEX'''<br />
 
-
==Overview==
+
==INOSINE-ADENINE BASE PAIRS IN A B-DNA DUPLEX==
-
The structure of the synthetic deoxydodecamer d(C-G-C-I-A-A-T-T-A-G-C-G) has been determined by single crystal X-ray diffraction techniques at 2.5A resolution. The refinement converged with a crystallographic residual, R = 0.19 and the location of 64 solvent molecules. The sequence crystallises as a B-DNA helix with 10 Watson-Crick base-pairs (4 A.T. and 6 G.C) and 2 inosine.adenine (I.A) pairs. The present work shows that in the purine.purine base-pairs the adenine adopts syn orientation with respect to the furanose moiety while the inosine is in the trans (anti) orientation. Two hydrogen bonds link the I.A. base-pair, one between N-1(I) and N-7(A), the other between O-6(I) and N-6(A). This bulky purine.purine base-pair is incorporated in the double helix at two positions with little distortion of either local or global conformation. The pairing observed in this study is presented as a model for I.A base-pairs in RNA codon-anticodon interactions and may help explain the thermodynamic stability of inosine containing base-pairs. Conformational parameters and base stacking interactions are presented and where appropriate compared with those of the native compound, d(C-G-C-G-A-A-T-T-C-G-C-G) and with other studies of oligonucleotides containing purine.purine base-pairs.
+
<StructureSection load='114d' size='340' side='right'caption='[[114d]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
-
 
+
== Structural highlights ==
-
==About this Structure==
+
<table><tr><td colspan='2'>[[114d]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=114D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=114D FirstGlance]. <br>
-
114D 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=114D 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=114d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=114d OCA], [https://pdbe.org/114d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=114d RCSB], [https://www.ebi.ac.uk/pdbsum/114d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=114d ProSAT]</span></td></tr>
-
==Reference==
+
</table>
-
Inosine.adenine base pairs in a B-DNA duplex., Corfield PW, Hunter WN, Brown T, Robinson P, Kennard O, Nucleic Acids Res. 1987 Oct 12;15(19):7935-49. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=3671069 3671069]
+
__TOC__
-
[[Category: Protein complex]]
+
</StructureSection>
-
[[Category: Brown, T.]]
+
[[Category: Large Structures]]
-
[[Category: Corfield, P W.R.]]
+
[[Category: Brown T]]
-
[[Category: Hunter, W N.]]
+
[[Category: Corfield PWR]]
-
[[Category: Kennard, O.]]
+
[[Category: Hunter WN]]
-
[[Category: Robinson, P.]]
+
[[Category: Kennard O]]
-
[[Category: b-dna]]
+
[[Category: Robinson P]]
-
[[Category: double helix]]
+
-
[[Category: mismatched]]
+
-
[[Category: modified]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 11:37:36 2008''
+

Current revision

INOSINE-ADENINE BASE PAIRS IN A B-DNA DUPLEX

PDB ID 114d

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/114d"
Personal tools