1CA5

INTERCALATION SITE OF HYPERTHERMOPHILE CHROMOSOMAL PROTEIN SSO7D/SAC7D BOUND TO DNA

Summary for 1CA5

• Entry DOI: 10.2210/pdb1ca5/pdb
• NMR Information: BMRB: 5905,5908,5909,5910
• Descriptor: 5'-D(*GP*TP*GP*AP*TP*CP*AP*C)-3', CHROMOSOMAL PROTEIN SAC7D (3 entities in total)
• Functional Keywords: hyperthermophile, chromosomal protein, sso7d, sac7d, dna binding, structural protein-dna complex, structural protein/dna
• Biological source: Sulfolobus acidocaldarius; More
• Total number of polymer chains: 3
• Total formula weight: 12480.15

Authors

Su, S.,Gao, Y.-G.,Robinson, H.,Shriver, J.W.,Wang, A.H.-J. (deposition date: 1999-02-23, release date: 2000-02-23, Last modification date: 2023-08-09)

Primary citation

Su, S.,Gao, Y.-G.,Robinson, H.,Liaw, Y.C.,Edmondson, S.P.,Shriver, J.W.,Wang, A.H.-J.
Crystal structures of the chromosomal proteins Sso7d/Sac7d bound to DNA containing T-G mismatched base-pairs
J.Mol.Biol., 303:395-403, 2000

PubMed Abstract: Sso7d and Sac7d are two small chromatin proteins from the hyperthermophilic archaeabacterium Sulfolobus solfataricus and Sulfolobus acidocaldarius, respectively. The crystal structures of Sso7d-GTGATCGC, Sac7d-GTGATCGC and Sac7d-GTGATCAC have been determined and refined at 1.45 A, 2.2 A and 2.2 A, respectively, to investigate the DNA binding property of Sso7d/Sac7d in the presence of a T-G mismatch base-pair. Detailed structural analysis revealed that the intercalation site includes the T-G mismatch base-pair and Sso7d/Sac7d bind to that mismatch base-pair in a manner similar to regular DNA. In the Sso7d-GTGATCGC complex, a new inter-strand hydrogen bond between T2O4 and C14N4 is formed and well-order bridging water molecules are found. The results suggest that the less stable DNA stacking site involving a T-G mismatch may be a preferred site for protein side-chain intercalation.

PubMed: 11031116
DOI: 10.1006/jmbi.2000.4112

Experimental method

X-RAY DIFFRACTION (2.2 Å)