4KI2

Crystallographic analysis of an RNA-polymerase sigma-subunit fragment complexed with -10 promoter element ssDNA

Replaces:  4GOR

Summary for 4KI2

• Entry DOI: 10.2210/pdb4ki2/pdb
• Related: 3UGO 3UGP
• Descriptor: DNA (5'-D(*TP*GP*TP*AP*CP*AP*AP*TP*GP*GP*G)-3'), RNA polymerase sigma factor, POTASSIUM ION (3 entities in total)
• Functional Keywords: ssdna, g-quartet, g-quadruplex, promoter recognition, promoter opening, transcription initiation, protein-dna binding, ssdna-binding, transcription-dna complex, transcription/dna
• Biological source: Thermus aquaticus; More
• Cellular location: Cytoplasm : Q9EZJ8
• Total number of polymer chains: 6
• Total formula weight: 69925.27

Authors

Feklistov, A.,Darst, S.A. (deposition date: 2013-05-01, release date: 2013-09-04, Last modification date: 2024-02-28)

Primary citation

Feklistov, A.,Darst, S.A.
Crystallographic analysis of an RNA polymerase sigma-subunit fragment complexed with -10 promoter element ssDNA: quadruplex formation as a possible tool for engineering crystal contacts in protein-ssDNA complexes.
Acta Crystallogr.,Sect.F, 69:950-955, 2013

PubMed Abstract: Structural studies of -10 promoter element recognition by domain 2 of the RNA polymerase σ subunit [Feklistov & Darst (2011), Cell, 147, 1257-1269] reveal an unusual crystal-packing arrangement dominated by G-quartets. The 3'-terminal GGG motif of the oligonucleotide used in crystallization participates in G-quadruplex formation with GGG motifs from symmetry-related complexes. Stacking between neighboring G-quadruplexes results in the formation of pseudo-continuous four-stranded columns running throughout the length of the crystal (G-columns). Here, a new crystal form is presented with a different arrangement of G-columns and it is proposed that the fortuitous finding of G-quartet packing could be useful in engineering crystal contacts in protein-ssDNA complexes.

PubMed: 23989139
DOI: 10.1107/S1744309113020368

Experimental method

X-RAY DIFFRACTION (3.3 Å)