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.


1k5e

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
m (Protected "1k5e" [edit=sysop:move=sysop])
Current revision (18:45, 29 November 2023) (edit) (undo)
 
(6 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1k5e.png|left|200px]]
 
-
{{STRUCTURE_1k5e| PDB=1k5e | SCENE= }}
+
==Solution Structure of R-styrene Adduct in the Ras61 Sequence==
 +
<StructureSection load='1k5e' size='340' side='right'caption='[[1k5e]]' scene=''>
 +
== Structural highlights ==
 +
<table><tr><td colspan='2'>[[1k5e]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1K5E OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1K5E FirstGlance]. <br>
 +
</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=ABR:(R)-(N-PHENYL-2-HYDROXY-ETHYL)-2-DEOXY-ADENOSINE-5-MONOPHOSPHATE'>ABR</scene></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=1k5e FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1k5e OCA], [https://pdbe.org/1k5e PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1k5e RCSB], [https://www.ebi.ac.uk/pdbsum/1k5e PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1k5e ProSAT]</span></td></tr>
 +
</table>
 +
<div style="background-color:#fffaf0;">
 +
== Publication Abstract from PubMed ==
 +
Conformations of (R)-beta-(N(6)-adenyl)styrene oxide and (S)-beta-(N(6)-adenyl)styrene oxide adducts at position X(6) in d(CGGACXAGAAG).d(CTTCTTGTCCG), incorporating codons 60, 61 (underlined), and 62 of the human N-ras protooncogene, were refined from (1)H NMR data. These were designated as the beta-R(61,2) and beta-S(61,2) adducts. A total of 533 distance restraints and 162 dihedral restraints were used for the molecular dynamics calculations of the beta-S(61,2) adduct, while 518 distances and 163 dihedrals were used for the beta-R(61,2) adduct. The increased tether length of the beta-adducts results in two significant changes in adduct structure as compared to the corresponding alpha-styrenyl adducts [Stone, M. P., and Feng, B. (1996) Magn. Reson. Chem. 34, S105-S114]. First, it reduces the distortion introduced into the DNA duplex. For both the beta-R(61,2) and beta-S(61,2) adducts, the styrenyl moiety was positioned in the major groove of the duplex with little steric hindrance. Second, it mutes the influence of stereochemistry at the alpha-carbon such that both the beta-R(61,2) and beta-S(61,2) adducts exhibit similar conformations. The results were correlated with site-specific mutagenesis experiments that revealed the beta-R(61,2) and beta-S(61,2) adducts were not mutagenic and did not block polymerase bypass.
-
===Solution Structure of R-styrene Adduct in the Ras61 Sequence===
+
The nonmutagenic (R)- and (S)-beta-(N(6)-adenyl)styrene oxide adducts are oriented in the major groove and show little perturbation to DNA structure.,Hennard C, Finneman J, Harris CM, Harris TM, Stone MP Biochemistry. 2001 Aug 21;40(33):9780-91. PMID:11502171<ref>PMID:11502171</ref>
-
{{ABSTRACT_PUBMED_11502171}}
+
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-
 
+
</div>
-
==About this Structure==
+
<div class="pdbe-citations 1k5e" style="background-color:#fffaf0;"></div>
-
[[1k5e]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1K5E OCA].
+
== References ==
-
[[Category: Finneman, J.]]
+
<references/>
-
[[Category: Harris, C M.]]
+
__TOC__
-
[[Category: Harris, T M.]]
+
</StructureSection>
-
[[Category: Hennard, C.]]
+
[[Category: Large Structures]]
-
[[Category: Stone, M P.]]
+
[[Category: Finneman J]]
-
[[Category: Dna]]
+
[[Category: Harris CM]]
-
[[Category: Dna adduct]]
+
[[Category: Harris TM]]
-
[[Category: Solution structure of dna]]
+
[[Category: Hennard C]]
-
[[Category: Styrene]]
+
[[Category: Stone MP]]

Current revision

Solution Structure of R-styrene Adduct in the Ras61 Sequence

PDB ID 1k5e

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/1k5e"
Personal tools