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| {{STRUCTURE_1xjy| PDB=1xjy | SCENE= }} | | {{STRUCTURE_1xjy| PDB=1xjy | SCENE= }} |
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- | '''The crystal structures of the DNA binding sites of the RUNX1 transcription factor'''
| + | ===The crystal structures of the DNA binding sites of the RUNX1 transcription factor=== |
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- | ==Overview==
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- | 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.
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| + | (as it appears on PubMed at http://www.pubmed.gov), where 15735333 is the PubMed ID number. |
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| ==About this Structure== | | ==About this Structure== |
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| [[Category: Overhanging base]] | | [[Category: Overhanging base]] |
| [[Category: Runx1]] | | [[Category: Runx1]] |
- | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 15:07:38 2008'' | + | |
| + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 06:03:03 2008'' |
Revision as of 03:03, 28 July 2008
Template:STRUCTURE 1xjy
The crystal structures of the DNA binding sites of the RUNX1 transcription factor
Template:ABSTRACT PUBMED 15735333
About this Structure
Full crystallographic information is available from OCA.
Reference
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:15735333
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