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| [[Image:1xjy.gif|left|200px]]<br /><applet load="1xjy" size="450" color="white" frame="true" align="right" spinBox="true"
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| caption="1xjy, resolution 2.00Å" />
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| '''The crystal structures of the DNA binding sites of the RUNX1 transcription factor'''<br />
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| ==Overview== | | ==The crystal structures of the DNA binding sites of the RUNX1 transcription factor== |
| Runt-domain (RD) proteins are transcription factors that play fundamental, roles in various developmental pathways. They bind specifically to DNA, sequences of the general form PyGPyGGTPy (Py = pyrimidine), through which, they regulate transcription of target genes. The DNA duplex, TCTGCGGTC/TGACCGCAG, incorporating the binding site for the RD, transcription factors (bold), was crystallized in space group P4(3). X-ray, analysis of two crystals diffracting to 1.7 and 2.0 angstroms resolution, which had slight variations in their unit-cell parameters, revealed two, distinct conformations of the A-DNA helix. The two crystal structures, possessed several structure and hydration features that had previously, been observed in A-DNA duplexes. A comparative analysis of the present, A-DNA structures and those of previously reported B-DNA crystal structures, of RD-binding sites in free and protein-bound states showed the various, duplexes to display several common features. Within this series, the, present A-DNA duplexes adopt two conformations along the pathway from the, canonical A-DNA to the B-DNA forms and the protein-bound helices display, conformational features that are intermediate between those of the current, A-DNA structures and that of the B-DNA-type helix of the free RD target., Based on these data and energy considerations, it is likely that the, propensity of the RD-binding site to adopt the A-DNA or B-DNA conformation, in solution depends on the sequence context and environmental conditions, and that the transition from either DNA form to the protein-bound, conformation involves a small energy barrier.
| | <StructureSection load='1xjy' size='340' side='right'caption='[[1xjy]], [[Resolution|resolution]] 2.00Å' scene=''> |
| | | == Structural highlights == |
| ==About this Structure== | | <table><tr><td colspan='2'>[[1xjy]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XJY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1XJY FirstGlance]. <br> |
| 1XJY 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://ispc.weizmann.ac.il/oca-bin/ocashort?id=1XJY 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]] 2Å</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=1xjy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xjy OCA], [https://pdbe.org/1xjy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1xjy RCSB], [https://www.ebi.ac.uk/pdbsum/1xjy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1xjy ProSAT]</span></td></tr> |
| ==Reference== | | </table> |
| Structures of the DNA-binding site of Runt-domain transcription regulators., Kitayner M, Rozenberg H, Rabinovich D, Shakked Z, Acta Crystallogr D Biol Crystallogr. 2005 Mar;61(Pt 3):236-46. Epub 2005, Feb 24. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15735333 15735333]
| | __TOC__ |
| [[Category: Protein complex]]
| | </StructureSection> |
| [[Category: Kitayner, M.]] | | [[Category: Large Structures]] |
| [[Category: Rabinovich, D.]]
| | [[Category: Kitayner M]] |
| [[Category: Rozenberg, H.]]
| | [[Category: Rabinovich D]] |
| [[Category: Shakked, Z.]] | | [[Category: Rozenberg H]] |
| [[Category: a-dna]] | | [[Category: Shakked Z]] |
| [[Category: double helix]] | |
| [[Category: overhanging bases]] | |
| [[Category: runx1]] | |
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| ''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Sun Nov 25 02:20:34 2007''
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