6XJF

X-ray crystal structure of Pyrococcus furiosus general transcription factor TFE-alpha (SeMet labeled protein)

Summary for 6XJF

• Entry DOI: 10.2210/pdb6xjf/pdb
• Descriptor: Transcription factor E (1 entity in total)
• Functional Keywords: tfe, general transcription factor, transcription
• Biological source: Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)
• Total number of polymer chains: 8
• Total formula weight: 105827.42

Authors

Murakami, K.S.,Jun, S.H. (deposition date: 2020-06-23, release date: 2020-07-08, Last modification date: 2024-10-23)

Primary citation

Jun, S.H.,Hyun, J.,Cha, J.S.,Kim, H.,Bartlett, M.S.,Cho, H.S.,Murakami, K.S.
Direct binding of TFE alpha opens DNA binding cleft of RNA polymerase.
Nat Commun, 11:6123-6123, 2020

PubMed Abstract: Opening of the DNA binding cleft of cellular RNA polymerase (RNAP) is necessary for transcription initiation but the underlying molecular mechanism is not known. Here, we report on the cryo-electron microscopy structures of the RNAP, RNAP-TFEα binary, and RNAP-TFEα-promoter DNA ternary complexes from archaea, Thermococcus kodakarensis (Tko). The structures reveal that TFEα bridges the RNAP clamp and stalk domains to open the DNA binding cleft. Positioning of promoter DNA into the cleft closes it while maintaining the TFEα interactions with the RNAP mobile modules. The structures and photo-crosslinking results also suggest that the conserved aromatic residue in the extended winged-helix domain of TFEα interacts with promoter DNA to stabilize the transcription bubble. This study provides a structural basis for the functions of TFEα and elucidates the mechanism by which the DNA binding cleft is opened during transcription initiation in the stalk-containing RNAPs, including archaeal and eukaryotic RNAPs.

PubMed: 33257704
DOI: 10.1038/s41467-020-19998-x

Experimental method

X-RAY DIFFRACTION (3.2 Å)