1mk6

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
(New page: 200px<br /><applet load="1mk6" size="450" color="white" frame="true" align="right" spinBox="true" caption="1mk6" /> '''SOLUTION STRUCTURE OF THE 8,9-DIHYDRO-8-(N7-...)
Current revision (06:31, 1 May 2024) (edit) (undo)
 
(14 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1mk6.gif|left|200px]]<br /><applet load="1mk6" size="450" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1mk6" />
 
-
'''SOLUTION STRUCTURE OF THE 8,9-DIHYDRO-8-(N7-GUANYL)-9-HYDROXY-AFLATOXIN B1 ADDUCT MISPAIRED WITH DEOXYADENOSINE'''<br />
 
-
==Overview==
+
==SOLUTION STRUCTURE OF THE 8,9-DIHYDRO-8-(N7-GUANYL)-9-HYDROXY-AFLATOXIN B1 ADDUCT MISPAIRED WITH DEOXYADENOSINE==
-
The G --&gt; T transversion is the dominant mutation induced by the cationic, trans-8,9-dihydro-8-(N7-guanyl)-9-hydroxy-aflatoxin B(1) adduct. The, structure of d(ACATC(AFB)GATCT).d(AGATAGATGT), in which the cationic, adduct was mismatched with deoxyadenosine, was refined using molecular, dynamics calculations restrained by NOE data and dihedral restraints, obtained from NMR spectroscopy. Restrained molecular dynamics calculations, refined structures with pairwise rmsd &lt;1 A and a sixth root R1x factor, between the refined structure and NOE data of 10.5 x 10-2. The mismatched, duplex existed in a single conformation at neutral pH. The aflatoxin, moiety intercalated above the 5' face of the modified (AFB)G. The, mismatched dA was in the anti conformation about the glycosyl bond. It, extruded toward the major groove and did not participate in hydrogen, bonding with (AFB)G. The structure was compared with that of, d(ACATCGATCT).d(AGATAGATGT) containing the corresponding unmodified G.A, mismatch and with d(ACATC(AFB)GATCT).d(AGATCGATGT) containing the, aflatoxin lesion in the correctly paired (AFB)G.C context. The correctly, paired oligodeoxynucleotide exhibited Watson-Crick-type geometry at the, (AFB)G.C pair. It melted at higher temperature than the mismatched, (AFB)G.A duplex. The unmodified mismatched G.A duplex exhibited spectral, line broadening at neutral pH, suggesting a mixture of conformations. It, exhibited a lower melting temperature than did the mismatched (AFB)G.A, duplex. These differences correlated with replication bypass experiments, performed in vitro utilizing DNA polymerase I exo- [Johnston, D. S., and, Stone, M. P. (2000) Chem. Res. Toxicol. 13, 1158-1164]. Those experiments, showed that correct insertion of dC opposite (AFB)G blocked replication by, the enzyme, whereas incorrect insertion of dA opposite (AFB)G allowed, full-length replication of the adducted template strand.
+
<StructureSection load='1mk6' size='340' side='right'caption='[[1mk6]]' scene=''>
-
 
+
== Structural highlights ==
-
==About this Structure==
+
<table><tr><td colspan='2'>[[1mk6]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1MK6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1MK6 FirstGlance]. <br>
-
1MK6 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=1MK6 OCA].
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
-
 
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AFN:8,9-DIHYDRO-9-HYDROXY-AFLATOXIN+B1'>AFN</scene></td></tr>
-
==Reference==
+
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1mk6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mk6 OCA], [https://pdbe.org/1mk6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1mk6 RCSB], [https://www.ebi.ac.uk/pdbsum/1mk6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1mk6 ProSAT]</span></td></tr>
-
Mispairing of the 8,9-dihydro-8-(N7-guanyl)-9-hydroxy-aflatoxin B1 adduct with deoxyadenosine results in extrusion of the mismatched dA toward the major groove., Giri I, Johnston DS, Stone MP, Biochemistry. 2002 Apr 30;41(17):5462-72. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=11969407 11969407]
+
</table>
-
[[Category: Protein complex]]
+
__TOC__
-
[[Category: Giri, I.]]
+
</StructureSection>
-
[[Category: Johnston, D.S.]]
+
[[Category: Large Structures]]
-
[[Category: Stone, M.P.]]
+
[[Category: Synthetic construct]]
-
[[Category: aflatoxin b1- guanine adduct opposite an adenine]]
+
[[Category: Giri I]]
-
[[Category: mimicking ga transition]]
+
[[Category: Johnston DS]]
-
 
+
[[Category: Stone MP]]
-
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sun Nov 25 04:16:58 2007''
+

Current revision

SOLUTION STRUCTURE OF THE 8,9-DIHYDRO-8-(N7-GUANYL)-9-HYDROXY-AFLATOXIN B1 ADDUCT MISPAIRED WITH DEOXYADENOSINE

PDB ID 1mk6

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/1mk6"
Personal tools