The 2.1-A crystal structure of an archaeal preinitiation complex: TATA-box-binding protein/transcription factor (II)B core/TATA-box.

Archaea possess a basal transcriptional apparatus that resembles that of eukaryotes. Here we report the 2.1-A crystal structure of the archaeal transcription factor complex formed by the TATA-box-binding protein (TBP), the transcription factor IIB homolog, and a DNA target, all from the hyperthermophile Pyrococcus woesei. The overall fold of these two basal transcription factors is essentially the same as that of their eukaryotic counterparts. However, in comparison with the eukaryotic complexes, the archaeal TBP-DNA interface is more symmetrical, and in this structure the orientation of the preinitiation complex assembly on the promoter is inverted with respect to that seen in all crystal structures of comparable eukaryotic systems. This study of the structural details of an archaeal transcription factor complex presents the opportunity to examine the evolution of the basal eukaryotic transcriptional apparatus from a stereochemical viewpoint and to extend our understanding of the physical biochemistry of transcriptional initiation.

[1]  Wolfgang Kabsch,et al.  Evaluation of Single-Crystal X-ray Diffraction Data from a Position-Sensitive Detector , 1988 .

[2]  G. Olsen,et al.  Transcription factor IID in the Archaea: sequences in the Thermococcus celer genome would encode a product closely related to the TATA-binding protein of eukaryotes. , 1994, Proceedings of the National Academy of Sciences of the United States of America.

[3]  R. Dickerson,et al.  How proteins recognize the TATA box. , 1996, Journal of molecular biology.

[4]  P. Baumann,et al.  Molecular cloning of the transcription factor TFIIB homolog from Sulfolobus shibatae. , 1995, Proceedings of the National Academy of Sciences of the United States of America.

[5]  Mike Carson,et al.  RIBBONS 2.0 , 1991 .

[6]  P. Baumann,et al.  Cloning and functional analysis of the TATA binding protein from Sulfolobus shibatae. , 1995, Nucleic acids research.

[7]  T. Richmond,et al.  Crystal structure of a yeast TFIIA/TBP/DNA complex , 1996, Nature.

[8]  D. Reinberg,et al.  Multiple functional domains of human transcription factor IIB: distinct interactions with two general transcription factors and RNA polymerase II. , 1993, Genes & development.

[9]  C. Daniels,et al.  In vivo definition of an archaeal promoter , 1995, Journal of bacteriology.

[10]  P. Sigler,et al.  Crystal Structure of the Yeast TFIIA/TBP/DNA Complex , 1996, Science.

[11]  P. Londei,et al.  Complete nucleotide sequence of an archaeal (Pyrococcus woesei) gene encoding a homolog of eukaryotic transcription factor IIB (TFIIB). , 1993, Nucleic acids research.

[12]  M. Adams.  Enzymes and proteins from organisms that grow near and above 100 degrees C. , 1993, Annual review of microbiology.

[13]  K. Sharp,et al.  Protein folding and association: Insights from the interfacial and thermodynamic properties of hydrocarbons , 1991, Proteins.

[14]  R. Read.  Improved Fourier Coefficients for Maps Using Phases from Partial Structures with Errors , 1986 .

[15]  J. Zou,et al.  Improved methods for building protein models in electron density maps and the location of errors in these models. , 1991, Acta crystallographica. Section A, Foundations of crystallography.

[16]  Stephen K. Burley,et al.  1.9 Å resolution refined structure of TBP recognizing the minor groove of TATAAAAG , 1994, Nature Structural Biology.

[17]  A T Brünger,et al.  Protein hydration observed by X-ray diffraction. Solvation properties of penicillopepsin and neuraminidase crystal structures. , 1994, Journal of molecular biology.

[18]  Steven Hahn,et al.  Crystal structure of a yeast TBP/TATA-box complex , 1993, Nature.

[19]  P. Thuriaux,et al.  Transcription in archaea: similarity to that in eucarya. , 1995, Proceedings of the National Academy of Sciences of the United States of America.

[20]  Stephen K. Burley,et al.  Co-crystal structure of TBP recognizing the minor groove of a TATA element , 1993, Nature.

[21]  S. Burley,et al.  Crystal structure of a TFIIB–TBP–TATA-element ternary complex , 1995, Nature.

[22]  Axel T. Brunger,et al.  X-PLOR Version 3.1: A System for X-ray Crystallography and NMR , 1992 .

[23]  W. Zillig,et al.  Elements of an archaeal promoter defined by mutational analysis. , 1992, Nucleic acids research.

[24]  P. Baumann,et al.  The TATA-binding protein: a general transcription factor in eukaryotes and archaebacteria. , 1994, Science.

[25]  S K Burley,et al.  Crystal structure of a human TATA box-binding protein/TATA element complex. , 1996, Proceedings of the National Academy of Sciences of the United States of America.

[26]  M. Thomm,et al.  Two Transcription Factors Related with the Eucaryal Transcription Factors TATA-binding Protein and Transcription Factor IIB Direct Promoter Recognition by an Archaeal RNA Polymerase* , 1996, The Journal of Biological Chemistry.

[27]  Collaborative Computational,et al.  The CCP4 suite: programs for protein crystallography. , 1994, Acta crystallographica. Section D, Biological crystallography.

[28]  P B Sigler,et al.  The crystal structure of a hyperthermophilic archaeal TATA-box binding protein. , 1996, Journal of molecular biology.

[29]  Danny Reinberg,et al.  Solution structure of the c-terminal core domain of human TFIIB: Similarity to cyclin A and interaction with TATA-binding protein , 1995, Cell.