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.


1zf6

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (09:04, 14 February 2024) (edit) (undo)
 
(12 intermediate revisions not shown.)
Line 1: Line 1:
-
[[Image:1zf6.gif|left|200px]]
 
-
{{Structure
+
==TGG DUPLEX A-DNA==
-
|PDB= 1zf6 |SIZE=350|CAPTION= <scene name='initialview01'>1zf6</scene>, resolution 1.500&Aring;
+
<StructureSection load='1zf6' size='340' side='right'caption='[[1zf6]], [[Resolution|resolution]] 1.50&Aring;' scene=''>
-
|SITE=
+
== Structural highlights ==
-
|LIGAND= <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene> and <scene name='pdbligand=NA:SODIUM ION'>NA</scene>
+
<table><tr><td colspan='2'>[[1zf6]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZF6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1ZF6 FirstGlance]. <br>
-
|ACTIVITY=
+
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.5&#8491;</td></tr>
-
|GENE=
+
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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=1zf6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1zf6 OCA], [https://pdbe.org/1zf6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1zf6 RCSB], [https://www.ebi.ac.uk/pdbsum/1zf6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1zf6 ProSAT]</span></td></tr>
-
 
+
</table>
-
'''TGG DUPLEX A-DNA'''
+
__TOC__
-
 
+
</StructureSection>
-
 
+
[[Category: Large Structures]]
-
==Overview==
+
[[Category: Cavaliere E]]
-
The fundamental question of how sequence defines conformation is explicitly answered if the structures of all possible sequences of a macromolecule are determined. We present here a crystallographic screen of all permutations of the inverted repeat DNA sequence d(CCnnnN6N7N8GG), where N6, N7, and N8 are any of the four naturally occurring nucleotides. At this point, 63 of the 64 possible permutations have been crystallized from a defined set of solutions. When combined with previous work, we have assembled a data set of 37 single-crystal structures from 29 of the sequences in this motif, representing three structural classes of DNA (B-DNA, A-DNA, and four-stranded Holliday junctions). This data set includes a unique set of amphimorphic sequence, those that crystallize in two different conformations and serve to bridge the three structural phases. We have thus constructed a map of DNA structures that can be walked through in single nucleotide steps. Finally, the resulting data set allows us to dissect in detail the stabilization of and conformational variations within structural classes and identify significant conformational deviations within a particular structural class that result from sequence rather than crystal or crystallization effects.
+
[[Category: Harms M]]
-
 
+
[[Category: Hays FA]]
-
==About this Structure==
+
[[Category: Ho PS]]
-
1ZF6 is a [[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=1ZF6 OCA].
+
[[Category: Jones ZJR]]
-
 
+
[[Category: Raup D]]
-
==Reference==
+
[[Category: Teegarden AT]]
-
How sequence defines structure: a crystallographic map of DNA structure and conformation., Hays FA, Teegarden A, Jones ZJ, Harms M, Raup D, Watson J, Cavaliere E, Ho PS, Proc Natl Acad Sci U S A. 2005 May 17;102(20):7157-62. Epub 2005 May 3. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15870206 15870206]
+
[[Category: Watson J]]
-
[[Category: Protein complex]]
+
-
[[Category: Cavaliere, E.]]
+
-
[[Category: Harms, M.]]
+
-
[[Category: Hays, F A.]]
+
-
[[Category: Ho, P S.]]
+
-
[[Category: Jones, Z J.R.]]
+
-
[[Category: Raup, D.]]
+
-
[[Category: Teegarden, A T.]]
+
-
[[Category: Watson, J.]]
+
-
[[Category: CA]]
+
-
[[Category: NA]]
+
-
[[Category: crystallographic screen]]
+
-
[[Category: dna structure]]
+
-
[[Category: holliday junction]]
+
-
[[Category: molecular structure]]
+
-
 
+
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 15:34:42 2008''
+

Current revision

TGG DUPLEX A-DNA

PDB ID 1zf6

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/1zf6"
Personal tools