Refined structure of Cro repressor protein from bacteriophage λ suggests both flexibility and plasticity

Journal of Molecular Biology - Tập 280 Số 1 - Trang 129-136 - 1998
D.H. Ohlendorf1, Dale E. Tronrud1, Brian W. Matthews1
1Institute of Molecular Biology, Howard Hughes Medical Institute and Department of Physics, University of Oregon, Eugene, OR 97403-1229, USA

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Tài liệu tham khảo

Albright, 1998, Crystal structure of λ-Cro bound to a consensus operator at 3.0 Å resolution, J. Mol. Biol., 280, 137, 10.1006/jmbi.1998.1848

Albright, 1996, High-resolution structure of an engineered Cro monomer shows changes in conformation relative to the native dimer, Biochemistry, 35, 735, 10.1021/bi951958n

Anderson, 1979, The structure of a repressor, J. Mol. Biol., 130, 507, 10.1016/0022-2836(79)90437-6

Anderson, 1981, Structure of the cro repressor from bacteriophage λ and its interaction with DNA, Nature, 290, 754, 10.1038/290754a0

Anderson, 1982, Proposed α-helical super-secondary structure associated with protein-DNA recognition, J. Mol. Biol., 159, 745, 10.1016/0022-2836(82)90111-5

Brennan, 1989, The helix-turn-helix DNA-binding motif, J. Biol. Chem., 264, 1903, 10.1016/S0021-9258(18)94115-3

Brennan, 1990, Protein-DNA conformational changes in the crystal structure of a lambda Cro-operator complex, Proc. Natl Acad. Sci. USA, 87, 8165, 10.1073/pnas.87.20.8165

Chothia, 1986, The relation between the divergence of sequence and structure in proteins, EMBO J., 5, 823, 10.1002/j.1460-2075.1986.tb04288.x

Jack, 1978, Refinement of large structures by simultaneous minimization of energy and R factor, Acta Crystallog. sect. A, 34, 931, 10.1107/S0567739478001904

Laskowski, 1993, PROCHECK, J. Appl. Crystallog., 26, 283, 10.1107/S0021889892009944

Lee, 1971, The interpretation of protein structures, J. Mol. Biol., 55, 379, 10.1016/0022-2836(71)90324-X

Matsuo, 1995, Three-dimensional dimer structure of the λ-Cro repressor in solution as determined by heteronuclear multidimensional NMR, J. Mol. Biol., 254, 668, 10.1006/jmbi.1995.0646

Nicholson, 1988, Enhanced protein thermostability from designed mutations that interact with alpha-helix dipoles, Nature, 336, 651, 10.1038/336651a0

Nicholson, 1991, Analysis of the interaction between charged side-chains and the α-helix dipole using designed thermostable mutants of phage T4 lysozyme, Biochemistry, 30, 9816, 10.1021/bi00105a002

Ohlendorf, 1982, The molecular basis of DNA-protein recognition inferred from the structure of cro repressor, Nature, 298, 718, 10.1038/298718a0

Ohlendorf, 1983, Many gene-regulatory proteins appear to have a similar α-helical fold that binds DNA and evolved from a common precursor, J. Mol. Evol., 19, 109, 10.1007/BF02300748

Pabo, 1984, Protein-DNA recognition, Annu. Rev. Biochem., 53, 293, 10.1146/annurev.bi.53.070184.001453

Pakula, 1989, Amino acid substitutions that increase the thermal stability of the λ Cro protein, Proteins: Struct. Funct. Genet., 5, 202, 10.1002/prot.340050303

Pakula, 1990, Reverse hydrophobic effects relieved by amino-acid substitutions at a protein surface, Nature, 344, 363, 10.1038/344363a0

Ptashne, 1986

Richardson, 1981, The anatomy and taxonomy of protein structure, Advan. Protein Chem., 34, 167, 10.1016/S0065-3233(08)60520-3

Rossmann, 1979, Processing oscillation diffraction data for very large unit cells with an automatic convolution technique and profile fitting, J. Appl. Crystallog., 12, 225, 10.1107/S0021889879012218

Schellman, 1980, The αL conformation at the ends of helices, 53

Schmid, 1981, An oscillation data collection system for high-resolution protein crystallography, Acta Crystallog. sect. A, 37, 701, 10.1107/S0567739481001587

Takeda, 1977, Cro regulatory protein specified by bacteriophage lambda. Structure, DNA-binding and repression of RNA synthesis, J. Biol. Chem., 252, 6177, 10.1016/S0021-9258(17)40047-0

Takeda, 1986, Different interactions used by Cro repressor in specific and nonspecific DNA binding, J. Biol. Chem., 261, 8608, 10.1016/S0021-9258(19)84423-X

Tidor, 1994, Helix-capping interaction in (Cro protein, Proteins: Struct. Funct. Genet., 19, 310, 10.1002/prot.340190406

Tronrud, 1992, Conjugate-direction minimization, Acta Crystallog. sect. A, 48, 912, 10.1107/S0108767392005415

Tronrud, 1996, Knowledge-based B-factor restraints for the refinement of proteins, J. Appl. Crystallog., 29, 100, 10.1107/S002188989501421X

Tronrud, 1987, An efficient general-purpose least-squares refinement program for macromolecular structures, Acta Crystallog. sect. A, 43, 489, 10.1107/S0108767387099124

Venkatachalam, 1968, Stereochemical criteria for polypeptides and proteins. V. Conformation of a system of three linked peptide units, Biopolymers, 6, 1425, 10.1002/bip.1968.360061006

Wagner, 1992, NMR structure determination in solution, Annu. Rev. Biophys. Biomol. Struct., 21, 167, 10.1146/annurev.bb.21.060192.001123

Zhang, 1995, EDPDB, J. Appl. Crystallog., 28, 624, 10.1107/S0021889895001063

Zhang, 1995, Protein flexibility and adaptability seen in 25 crystal forms of T4 lysozyme, J. Mol. Biol., 250, 527, 10.1006/jmbi.1995.0396