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.


307d

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: 200px<br /> <applet load="307d" size="450" color="white" frame="true" align="right" spinBox="true" caption="307d, resolution 1.850&Aring;" /> '''STRUCTURE OF A DNA...)
Current revision (09:25, 21 February 2024) (edit) (undo)
 
(13 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:307d.gif|left|200px]]<br />
 
-
<applet load="307d" size="450" color="white" frame="true" align="right" spinBox="true"
 
-
caption="307d, resolution 1.850&Aring;" />
 
-
'''STRUCTURE OF A DNA ANALOG OF THE PRIMER FOR HIV-1 RT SECOND STRAND SYNTHESIS'''<br />
 
-
==Overview==
+
==Structure of a DNA analog of the primer for HIV-1 RT second strand synthesis==
-
The non-self-complementary DNA decamer, C-A-A-A-G-A-A-A-A-G/C-T-T-T-T-C-T-T-T-G is a DNA/DNA analogue of a portion, of the polypurine tract or PPT, which is a RNA/DNA hybrid that serves as a, primer for synthesis of the (+) DNA strand by HIV reverse transcriptase, (RT), and which is not digested by the RNase H domain of reverse, transcriptase following (-) strand synthesis. The same unusual, conformation that eludes RNase H, thought to be a change in width of minor, groove, may also be responsible for the inhibition of HIV RT by minor, groove binding drugs such as distamycin and their bis-linked derivatives., The present X-ray crystal structure of this DNA decamer exhibits the usual, properties of A-tract B-DNA under biologically relevant conditions: large, propeller twist of base-pairs, narrowed minor groove, and a straight helix, axis. Groove narrowing is fully developed in the A-A-A-A region, but not, in the A-A-A region, which previous investigators have proposed as being, too short to exhibit typical A-tract properties. The RNA/DNA hybrid, produced by HIV reverse transcriptase during (-) strand synthesis, presumably forms a "heteromerous" or H-helix with narrower minor groove, than an A-helical RNA/RNA duplex. If the narrowing of minor groove in, A-tract H-helices is comparable to that seen in A-tract B-helices, then, the narrowed minor groove of the polypurine tract could make the second, primer site both (1) impervious to RNase H digestion, and (2) susceptible, to inhibition by minor groove binding drugs.
+
<StructureSection load='307d' size='340' side='right'caption='[[307d]], [[Resolution|resolution]] 1.85&Aring;' scene=''>
-
 
+
== Structural highlights ==
-
==About this Structure==
+
<table><tr><td colspan='2'>[[307d]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=307D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=307D FirstGlance]. <br>
-
307D 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://ispc.weizmann.ac.il/oca-bin/ocashort?id=307D 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]] 1.85&#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=307d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=307d OCA], [https://pdbe.org/307d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=307d RCSB], [https://www.ebi.ac.uk/pdbsum/307d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=307d ProSAT]</span></td></tr>
-
==Reference==
+
</table>
-
Structure of a DNA analog of the primer for HIV-1 RT second strand synthesis., Han GW, Kopka ML, Cascio D, Grzeskowiak K, Dickerson RE, J Mol Biol. 1997 Jun 27;269(5):811-26. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=9223643 9223643]
+
__TOC__
-
[[Category: Protein complex]]
+
</StructureSection>
-
[[Category: Cascio, D.]]
+
[[Category: Large Structures]]
-
[[Category: Dickerson, R.E.]]
+
[[Category: Cascio D]]
-
[[Category: Grzeskowiak, K.]]
+
[[Category: Dickerson RE]]
-
[[Category: Han, G.W.]]
+
[[Category: Grzeskowiak K]]
-
[[Category: Kopka, M.L.]]
+
[[Category: Han GW]]
-
[[Category: b-dna]]
+
[[Category: Kopka ML]]
-
[[Category: double helix]]
+
-
 
+
-
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Thu Nov 8 14:57:48 2007''
+

Current revision

Structure of a DNA analog of the primer for HIV-1 RT second strand synthesis

PDB ID 307d

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/307d"
Personal tools