4PSN

Crystal structure of apeThermo-DBP-RP2

Summary for 4PSN

• Entry DOI: 10.2210/pdb4psn/pdb
• Related: 4PSL 4PSM 4PSO
• Descriptor: ssDNA binding protein, IMIDAZOLE, GLYCEROL, ... (4 entities in total)
• Functional Keywords: ssdna binding protein, dna binding protein
• Biological source: Aeropyrum pernix
• Total number of polymer chains: 4
• Total formula weight: 107671.10

Authors

Gahlei, H.,von Moeller, H.,Eppers, D.,Loll, B.,Wahl, M.C. (deposition date: 2014-03-07, release date: 2014-04-30, Last modification date: 2024-10-30)

Primary citation

Ghalei, H.,Moeller, H.v.,Eppers, D.,Sohmen, D.,Wilson, D.N.,Loll, B.,Wahl, M.C.
Entrapment of DNA in an intersubunit tunnel system of a single-stranded DNA-binding protein.
Nucleic Acids Res., 42:6698-6708, 2014

PubMed Abstract: Instead of a classical single-stranded deoxyribonuleic acid (DNA)-binding protein (SSB), some hyperthermophilic crenarchaea harbor a non-canonical SSB termed ThermoDBP. Two related but poorly characterized groups of proteins, which share the ThermoDBP N-terminal DNA-binding domain, have a broader phylogenetic distribution and co-exist with ThermoDBPs and/or other SSBs. We have investigated the nucleic acid binding properties and crystal structures of representatives of these groups of ThermoDBP-related proteins (ThermoDBP-RPs) 1 and 2. ThermoDBP-RP 1 and 2 oligomerize by different mechanisms and only ThermoDBP-RP2 exhibits strong single-stranded DNA affinity in vitro. A crystal structure of ThermoDBP-RP2 in complex with DNA reveals how the NTD common to ThermoDBPs and ThermoDBP-RPs can contact the nucleic acid in a manner that allows a symmetric homotetrameric protein complex to bind single-stranded DNA molecules asymmetrically. While single-stranded DNA wraps around the surface or binds along channels of previously investigated SSBs, it traverses an internal, intersubunit tunnel system of a ThermoDBP-RP2 tetramer. Our results indicate that some archaea have acquired special SSBs for genome maintenance in particularly challenging environments.

PubMed: 24744237
DOI: 10.1093/nar/gku259

Experimental method

X-RAY DIFFRACTION (2.05 Å)