31 March 2003

Biol 6312

Thermal Stability of Citrate Synthase

Link to Chime exercises

J Mol Biol 2000 Dec 8;304(4):657-68
Thermostability and thermoactivity of citrate synthases from the thermophilic and hyperthermophilic archaea, Thermoplasma acidophilum and Pyrococcus furiosus.
Arnott MA, Michael RA, Thompson CR, Hough DW, Danson MJ

Biochemistry 1997 Aug 19;36(33):9983-94
The crystal structure of citrate synthase from the hyperthermophilic archaeon pyrococcus furiosus at 1.9 A resolution,.
Russell RJ, Ferguson JM, Hough DW, Danson MJ, Taylor GL

Bell GS, Russell RJ, Connaris H, Hough DW, Danson MJ, Taylor GL.
Stepwise adaptations of citrate synthase to survival at life's extremes. From psychrophile to hyperthermophile.
Eur J Biochem. 2002 Dec;269(24):6250-60.

Russell RJ, Gerike U, Danson MJ, Hough DW, Taylor GL.
Structural adaptations of the cold-active citrate synthase from an Antarctic bacterium.
Structure. 1998 Mar 15;6(3):351-61.

Reviews:

Microbiol Mol Biol Rev 2001 Mar;65(1):1-43
Hyperthermophilic enzymes: sources, uses, and molecular mechanisms for thermostability.
Vieille C, Zeikus GJ

Russell NJ.
Toward a molecular understanding of cold activity of enzymes from psychrophiles.
Extremophiles. 2000 Apr;4(2):83-90. Review.

TATA Binding Protein

Link to Chime exercises

Primary Reference:

J Mol Biol 1996 Aug 16;261(2):239-54
How proteins recognize the TATA box.
Juo ZS, Chiu TK, Leiberman PM, Baikalov I, Berk AJ, Dickerson RE

Original papers of TATA-binding Protein Crystal Structures

Proc Natl Acad Sci U S A 1996 May 14;93(10):4862-7
Crystal structure of a human TATA box-binding protein/TATA element complex.
Nikolov DB, Chen H, Halay ED, Hoffman A, Roeder RG, Burley SK

Proc Natl Acad Sci U S A 1997 Jun 10;94(12):6042-7
The 2.1-A crystal structure of an archaeal preinitiation complex: TATA-box-binding protein/transcription factor (II)B core/TATA-box.
Kosa PF, Ghosh G, DeDecker BS, Sigler PB

Nat Struct Biol 1994 Sep;1(9):638-53
1.9 A resolution refined structure of TBP recognizing the minor groove of TATAAAAG.
Kim JL, Burley SK

Nature 1993 Oct 7;365(6446):512-20
Crystal structure of a yeast TBP/TATA-box complex.
Kim Y, Geiger JH, Hahn S, Sigler PB

Ternary Structures with other proteins

Nature 1996 May 9;381(6578):127-51
Crystal structure of a yeast TFIIA/TBP/DNA complex.
Tan S, Hunziker Y, Sargent DF, Richmond TJ

Nature 1995 Sep 14;377(6545):119-28
Crystal structure of a TFIIB-TBP-TATA-element ternary complex.
Nikolov DB, Chen H, Halay ED, Usheva AA, Hisatake K, Lee DK, Roeder RG, Burley SK

Science 1996 May 10;272(5263):830-6
Crystal structure of the yeast TFIIA/TBP/DNA complex.
Geiger JH, Hahn S, Lee S, Sigler PB

Analysis of DNA Structure:

RE Dickerson
DNA bending: the prevalence of kinkiness and the virtues of normality
Nucleic Acids Res. 1998 26: 1906-1926