378d

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (08:39, 7 February 2024) (edit) (undo)
 
(11 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:378d.gif|left|200px]]<br /><applet load="378d" size="350" color="white" frame="true" align="right" spinBox="true"
 
-
caption="378d, resolution 2.400&Aring;" />
 
-
'''STRUCTURE OF THE SIDE-BY-SIDE BINDING OF DISTAMYCIN TO DNA'''<br />
 
-
==Overview==
+
==STRUCTURE OF THE SIDE-BY-SIDE BINDING OF DISTAMYCIN TO DNA==
-
The 2.40 A resolution crystal structure of a side-by-side binding of distamycin A molecules to a DNA octamer d(GTATATAC)2 with an extended alternating TA sequence has been determined. The unit-cell parameters are a = 29.55, b = 42.18, c = 43.38 A, beta = 96.56 degrees, space group P21, with two molecules in the asymmetric unit, in contrast to all previous side-by-side distamycin-DNA complexes which have only a single DNA strand and one drug molecule in the asymmetric unit. The structure was solved by the molecular-replacement method and refined to an R index of 21.0% using 3467 reflections [&gt;/= 2sigma(F)]. The minor grooves of the DNA molecules bind two side-by-side antiparallel staggered distamycins spanning about five base pairs and virtually covering the entire length of the DNA. The octamer duplexes exhibit low-high alternations in the helical twist, sugar puckering and the C-O3' and O3'-P torsion angles, similar to the earlier side-by-side complexes containing inosine bases. The molecules are stacked one over the other along the ac diagonal in an infinite pseudo-continuous helical column with no lateral interactions.
+
<StructureSection load='378d' size='340' side='right'caption='[[378d]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
-
 
+
== Structural highlights ==
-
==About this Structure==
+
<table><tr><td colspan='2'>[[378d]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=378D OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=378D FirstGlance]. <br>
-
378D is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=DMY:'>DMY</scene> and <scene name='pdbligand=NA:'>NA</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=378D 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]] 2.4&#8491;</td></tr>
-
 
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DMY:DISTAMYCIN+A'>DMY</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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=378d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=378d OCA], [https://pdbe.org/378d PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=378d RCSB], [https://www.ebi.ac.uk/pdbsum/378d PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=378d ProSAT]</span></td></tr>
-
Structure of the side-by-side binding of distamycin to d(GTATATAC)2., Mitra SN, Wahl MC, Sundaralingam M, Acta Crystallogr D Biol Crystallogr. 1999 Mar;55(Pt 3):602-9. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=10089456 10089456]
+
</table>
-
[[Category: Protein complex]]
+
__TOC__
-
[[Category: Mitra, S N.]]
+
</StructureSection>
-
[[Category: Sundaralingam, M.]]
+
[[Category: Large Structures]]
-
[[Category: Wahl, M C.]]
+
[[Category: Mitra SN]]
-
[[Category: DMY]]
+
[[Category: Sundaralingam M]]
-
[[Category: NA]]
+
[[Category: Wahl MC]]
-
[[Category: double drug in minor groove]]
+
-
[[Category: double helix]]
+
-
[[Category: right handed dna]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 19:02:26 2008''
+

Current revision

STRUCTURE OF THE SIDE-BY-SIDE BINDING OF DISTAMYCIN TO DNA

PDB ID 378d

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/378d"
Personal tools