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.


1zje

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (09:05, 14 February 2024) (edit) (undo)
 
(13 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1zje.gif|left|200px]]<br /><applet load="1zje" size="350" color="white" frame="true" align="right" spinBox="true"
 
-
caption="1zje, resolution 2.1&Aring;" />
 
-
'''12mer-spd'''<br />
 
-
==Overview==
+
==12mer-spd==
-
Three crystal structures containing the entire Sp1 consensus sequence d(GGGGCGGGG) with two or three additional base-pairs on either the 5' or 3' ends and overhangs have been determined. Despite the different lengths of DNA in the pseudo-dodecamers and pseudo-tridecamer, all three structures form A-DNA duplexes that share a common set of crystal contacts, including a T*(G.C) base triplet and a 5'-overhang that flips out and away from the helical axes to form a Hoogsteen base-pair with the 3'-overhang of a symmetry mate. The global conformations of the three structures differ, however, in the widths of their respective major grooves, the lengths of the molecules, and the extent of crystal packing. The structures were determined from crystals grown in an unusual precipitant for A-DNA, polyethylene glycol (PEG) 400, in combination with polyamines or ions; cobalt hexamine for the pseudo-tridecamer, and spermidine for the pseudo-dodecamers. As the Sp1 binding site is a target for antiviral and anticancer drugs, pseudo-dodecamer crystals were soaked with one such antiviral and anticancer compound, P4N. Although P4N was not visualized unambiguously in the electron density maps, the effect of the drug is evident from significant differences in the lattice constants, crystal packing, and overall conformation of the structure.
+
<StructureSection load='1zje' size='340' side='right'caption='[[1zje]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
-
 
+
== Structural highlights ==
-
==About this Structure==
+
<table><tr><td colspan='2'>[[1zje]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZJE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1ZJE FirstGlance]. <br>
-
1ZJE 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=1ZJE 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]] 2.1&#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=1zje FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1zje OCA], [https://pdbe.org/1zje PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1zje RCSB], [https://www.ebi.ac.uk/pdbsum/1zje PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1zje ProSAT]</span></td></tr>
-
==Reference==
+
</table>
-
Influence of ions, hydration, and the transcriptional inhibitor P4N on the conformations of the Sp1 binding site., Dohm JA, Hsu MH, Hwu JR, Huang RC, Moudrianakis EN, Lattman EE, Gittis AG, J Mol Biol. 2005 Jun 17;349(4):731-44. Epub 2005 Apr 15. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15896803 15896803]
+
__TOC__
-
[[Category: Protein complex]]
+
</StructureSection>
-
[[Category: Dohm, J A.]]
+
[[Category: Large Structures]]
-
[[Category: Gittis, A G.]]
+
[[Category: Dohm JA]]
-
[[Category: Hsu, M H.]]
+
[[Category: Gittis AG]]
-
[[Category: Huang, R C.]]
+
[[Category: Hsu MH]]
-
[[Category: Hwu, J R.]]
+
[[Category: Huang RC]]
-
[[Category: Lattman, E E.]]
+
[[Category: Hwu JR]]
-
[[Category: Moudrianakis, E N.]]
+
[[Category: Lattman EE]]
-
[[Category: a-dna]]
+
[[Category: Moudrianakis EN]]
-
[[Category: flipped-out base]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 16:16:10 2008''
+

Current revision

12mer-spd

PDB ID 1zje

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/1zje"
Personal tools