1zf5: Difference between revisions

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-[[Image:1zf5.jpg|left|200px]]
- {{Structure
+==GCT duplex B-DNA==
-|PDB= 1zf5 |SIZE=350|CAPTION= <scene name='initialview01'>1zf5</scene>, resolution 0.99&Aring;
+<StructureSection load='1zf5' size='340' side='right'caption='[[1zf5]], [[Resolution|resolution]] 0.99&Aring;' scene=''>
-|SITE=
+== Structural highlights ==
-|LIGAND= <scene name='pdbligand=DA:2&#39;-DEOXYADENOSINE-5&#39;-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2&#39;-DEOXYCYTIDINE-5&#39;-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2&#39;-DEOXYGUANOSINE-5&#39;-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DT:THYMIDINE-5&#39;-MONOPHOSPHATE'>DT</scene>
+<table><tr><td colspan='2'>[[1zf5]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1ZF5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1ZF5 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]] 0.99&#8491;</td></tr>
-|GENE=
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1zf5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1zf5 OCA], [https://pdbe.org/1zf5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1zf5 RCSB], [https://www.ebi.ac.uk/pdbsum/1zf5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1zf5 ProSAT]</span></td></tr>
-|DOMAIN=
+</table>
-|RELATEDENTRY=[[1p4y|1P4Y]], [[1p4z|1P4Z]], [[1dcw|1DCW]], [[1dcv|1DCV]], [[1zew|1ZEW]], [[1zex|1ZEX]], [[1zey|1ZEY]], [[1zez|1ZEZ]], [[1zf0|1ZF0]], [[1zf1|1ZF1]], [[1zf2|1ZF2]], [[1zf3|1ZF3]], [[1zf4|1ZF4]], [[1zf6|1ZF6]], [[1zf7|1ZF7]], [[1zf8|1ZF8]], [[1zf9|1ZF9]], [[1zfa|1ZFA]], [[1zfb|1ZFB]], [[1zfc|1ZFC]], [[1zfe|1ZFE]], [[1zff|1ZFF]], [[1zfg|1ZFG]], [[1zfh|1ZFH]], [[1zfm|1ZFM]]
+__TOC__
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1zf5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1zf5 OCA], [http://www.ebi.ac.uk/pdbsum/1zf5 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1zf5 RCSB]</span>
+</StructureSection>
-}}
+[[Category: Large Structures]]
+[[Category: Cavaliere E]]
-'''GCT duplex B-DNA'''
+[[Category: Harms M]]
+[[Category: Hays FA]]
+[[Category: Ho PS]]
-==Overview==
+[[Category: Jones ZJR]]
-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: Raup D]]
+[[Category: Teegarden AT]]
-==About this Structure==
+[[Category: Watson J]]
-ZF5 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=1ZF5 OCA].
-==Reference==
-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: 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: crystallographic screen]]
-[[Category: dna structure]]
-[[Category: holliday junction]]
-[[Category: molecular structure]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 01:35:12 2008''