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1xjx

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{{STRUCTURE_1xjx| PDB=1xjx | SCENE= }}
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'''The crystal structures of the DNA binding sites of the RUNX1 transcription factor'''
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===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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{{ABSTRACT_PUBMED_15735333}}
==About this Structure==
==About this Structure==
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[[Category: Overhanging base]]
[[Category: Overhanging base]]
[[Category: Runx1]]
[[Category: Runx1]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 15:07:33 2008''
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Revision as of 23:41, 28 July 2008

Image:1xjx.png

Template:STRUCTURE 1xjx

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

Page seeded by OCA on Tue Jul 29 02:41:40 2008

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