Coupling of folding and binding for unstructured proteins

Current Opinion in Structural Biology - Tập 12 Số 1 - Trang 54-60 - 2002
H. Jane Dyson1, Peter E. Wright
1Department of Molecular Biology and Skaggs Institute for Chemical Biology, The Scripps Research Institute, 10550 North Torrey Pines Road, La Jolla, CA 92037, USA. [email protected]

Tóm tắt

Từ khóa


Tài liệu tham khảo

Wright, 1999, Intrinsically unstructured proteins: re-assessing the protein structure–function paradigm, J Mol Biol, 293, 321, 10.1006/jmbi.1999.3110

Dunker, 2001, Intrinsically disordered protein, J Mol Graph Model, 19, 26, 10.1016/S1093-3263(00)00138-8

Dunker, 2001, The protein trinity-linking function and disorder, Nat Biotechnol, 19, 805, 10.1038/nbt0901-805

Namba, 2001, Roles of partly unfolded conformations in macromolecular self-assembly, Genes Cells, 6, 1, 10.1046/j.1365-2443.2001.00384.x

Crivici, 1995, Molecular and structural basis of target recognition by calmodulin, Annu Rev Biophys Biomol Struct, 24, 85, 10.1146/annurev.bb.24.060195.000505

Spolar, 1994, Coupling of local folding to site-specific binding of proteins to DNA, Science, 263, 777, 10.1126/science.8303294

Love, 1995, Structural basis for DNA bending by the architectural transcription factor LEF-1, Nature, 376, 791, 10.1038/376791a0

Bowers, 1999, A folding transition and novel zinc finger accessory domain in the transcription factor ADR1, Nat Struct Biol, 6, 478, 10.1038/8283

Young, 2000, An accessory DNA binding motif in the zinc finger protein Adr1 assists stable binding to DNA and can be replaced by a third finger, Biochemistry, 39, 567, 10.1021/bi992049r

Holmbeck, 1998, DNA-induced conformational changes are the basis for cooperative dimerization by the DNA binding domain of the retinoid X receptor, J Mol Biol, 284, 533, 10.1006/jmbi.1998.2207

van Tilborg, 2000, Changes in dynamical behavior of the retinoid X receptor DNA-binding domain upon binding to a 14 base-pair DNA half site, Biochemistry, 39, 8747, 10.1021/bi991550g

Laity, 2000, DNA-induced α-helix capping in conserved linker sequences is a determinant of binding affinity in Cys2-His2 zinc fingers, J Mol Biol, 295, 719, 10.1006/jmbi.1999.3406

Laity, 2000, Molecular basis for modulation of biological function by alternate splicing of the Wilms’ tumor suppressor protein, Proc Natl Acad Sci USA, 97, 11932, 10.1073/pnas.97.22.11932

Young, 2001, Dynamic coupling between the SH2 and SH3 domains of c-Src and Hck underlies their inactivation by C-terminal tyrosine phosphorylation, Cell, 105, 115, 10.1016/S0092-8674(01)00301-4

Kimzey, 1999, Identification of a human T-cell leukemia virus type I tax peptide in contact with DNA, J Biol Chem, 274, 34226, 10.1074/jbc.274.48.34226

Twigg, 2001, Disordered to ordered folding in the regulation of diphtheria toxin repressor activity, Proc Natl Acad Sci USA, 98, 11259, 10.1073/pnas.191354798

Weaver, 2001, Corepressor-induced organization and assembly of the biotin repressor: a model for allosteric activation of a transcriptional regulator, Proc Natl Acad Sci USA, 98, 6045, 10.1073/pnas.111128198

Leulliot, 2001, Current topics in RNA–protein recognition: control of specificity and biological function through induced fit and conformational capture, Biochemistry, 40, 7947, 10.1021/bi010680y

Williamson, 2001, Proteins that bind RNA and the labs who love them, Nat Struct Biol, 8, 390, 10.1038/87540

Agalarov, 2000, Structure of the S15,S6,S18-rRNA complex: assembly of the 30S ribosome central domain, Science, 288, 107, 10.1126/science.288.5463.107

Mogridge, 1998, Independent ligand-induced folding of the RNA-binding domain and two functionally distinct antitermination regions in the phage lambda N protein, Mol Cell, 1, 265, 10.1016/S1097-2765(00)80027-1

Henkels, 2001, Linked folding and anion binding of the Bacillus subtilis ribonuclease P protein, Biochemistry, 40, 2777, 10.1021/bi002078y

Bouvet, 2001, Recognition of pre-formed and flexible elements of an RNA stem-loop by nucleolin, J Mol Biol, 309, 763, 10.1006/jmbi.2001.4691

Allain, 2000, Molecular basis of sequence-specific recognition of pre-ribosomal RNA by nucleolin, EMBO J, 19, 6870, 10.1093/emboj/19.24.6870

Radhakrishnan, 1997, Solution structure of the KIX domain of CBP bound to the transactivation domain of CREB: amodel for activator–coactivator interactions, Cell, 91, 741, 10.1016/S0092-8674(00)80463-8

Kussie, 1996, Structure of the MDM2 oncoprotein bound to the p53 tumor suppressor transactivation domain, Science, 274, 948, 10.1126/science.274.5289.948

Uesugi, 1997, Induced α-helix in the VP16 activation domain upon binding to a human TAF, Science, 277, 1310, 10.1126/science.277.5330.1310

Ayed, 2001, Latent and active p53 are identical in conformation, Nat Struct Biol, 8, 756, 10.1038/nsb0901-756

Grossmann, 2001, Molecular shapes of transcription factors TFIIB and VP16 in solution: implications for recognition, Biochemistry, 40, 6267, 10.1021/bi0028946

Botuyan, 1999, Binding of elongin A or a von Hippel–Lindau peptide stabilizes the structure of yeast elongin C, Proc Natl Acad Sci USA, 96, 9033, 10.1073/pnas.96.16.9033

Buchberger, 2000, Biophysical characterization of elongin C from Saccharomyces cerevisiae, Biochemistry, 39, 12512, 10.1021/bi005115u

Botuyan, 2001, Solution structure and dynamics of yeast elongin C in complex with a von Hippel–Lindau peptide, J Mol Biol, 312, 177, 10.1006/jmbi.2001.4938

He, 2001, Allosteric activation of a spring-loaded natriuretic peptide receptor dimer by hormone, Science, 293, 1657, 10.1126/science.1062246

Fairbrother, 1994, Solution conformation of an atrial natriuretic peptide variant selective for the type A receptor, Biochemistry, 33, 8897, 10.1021/bi00196a006

Abdul-Manan, 1999, Structure of Cdc42 in complex with the GTPase-binding domain of the ‘Wiskott–Aldrich syndrome’ protein, Nature, 399, 379, 10.1038/20726

Kim, 2000, Autoinhibition and activation mechanisms of the Wiskott–Aldrich syndrome protein, Nature, 404, 151, 10.1038/35010088

Lei, 2000, Structure of PAK1 in an autoinhibited conformation reveals a multistage activation switch, Cell, 102, 387, 10.1016/S0092-8674(00)00043-X

Huber, 2001, The cadherin cytoplasmic domain is unstructured in the absence of β-catenin — a possible mechanism for regulating cadherin turnover, J Biol Chem, 276, 12301, 10.1074/jbc.M010377200

Huber, 2001, The structure of the β-catenin/E-cadherin complex and the molecular basis of diverse ligand recognition by β-catenin, Cell, 105, 391, 10.1016/S0092-8674(01)00330-0

Graham, 2000, Crystal structure of a beta-catenin/Tcf complex, Cell, 103, 885, 10.1016/S0092-8674(00)00192-6

Zhou, 2001, Solution structure of DFF40 and DFF45 N-terminal domain complex and mutual chaperone activity of DFF40 and DFF45, Proc Natl Acad Sci USA, 98, 6051, 10.1073/pnas.111145098

Aivazian, 2000, Phosphorylation of T cell receptor zeta is regulated by a lipid dependent folding transition, Nat Struct Biol, 7, 1023, 10.1038/80930

Pfander, 1999, Structure of the active domain of the herpes simplex virus protein ICP47 in water/sodium dodecyl sulfate solution determined by nuclear magnetic resonance spectroscopy, Biochemistry, 38, 13692, 10.1021/bi9909647

Song, 2001, Molten-globule structure and membrane binding of the N-terminal protease-resistant domain (63–193) of the steroidogenic acute regulatory protein (StAR), Biochem J, 356, 151, 10.1042/0264-6021:3560151

Weikl, 1999, An unstructured C-terminal region of the Hsp90 co-chaperone p23 is important for its chaperone function, J Mol Biol, 293, 685, 10.1006/jmbi.1999.3172

Richardson, 2001, The importance of a mobile loop in regulating chaperonin/co-chaperonin interaction: humans versus Escherichia coli, J Biol Chem, 276, 4981, 10.1074/jbc.M008628200

Zhu, 2001, The quorum-sensing transcriptional regulator TraR requires its cognate signaling ligand for protein folding, protease resistance, and dimerization, Proc Natl Acad Sci USA, 98, 1507, 10.1073/pnas.98.4.1507

Lee, 2001, PAS domain receptor photoactive yellow protein is converted to a molten globule state upon activation, J Biol Chem, 276, 20821, 10.1074/jbc.C100106200

Lee, 2001, Folding and signaling share the same pathway in a photoreceptor, Proc Natl Acad Sci USA, 98, 9062, 10.1073/pnas.111153598

Genick, 1997, Structure of a protein photocycle intermediate by millisecond time-resolved crystallography, Science, 275, 1471, 10.1126/science.275.5305.1471

Craven, 2000, Probing the nature of the blue-shifted intermediate of photoactive yellow protein in solution by NMR: hydrogen-deuterium exchange data and pH studies, Biochemistry, 39, 14392, 10.1021/bi001628p

Garner, 1998, Predicting disordered regions from amino acid sequence: common themes despite differing structural characterization, Genome Informatics, 9, 201

Uversky, 2000, Why are ‘natively unfolded’ proteins unstructured under physiologic conditions?, Proteins, 41, 415, 10.1002/1097-0134(20001115)41:3<415::AID-PROT130>3.0.CO;2-7

Lee, 2001, Expression of the Oct-1 transcription factor and characterization of its interactions with the Bob1 coactivator, Biochemistry, 40, 6580, 10.1021/bi010095x

Salghetti, 2001, Regulation of transcriptional activation domain function by ubiquitin, Science, 293, 1651, 10.1126/science.1062079

Shoemaker, 2000, Speeding molecular recognition by using the folding funnel: the fly-casting mechanism, Proc Natl Acad Sci USA, 97, 8868, 10.1073/pnas.160259697

Koradi, 1996, MOLMOL: a program for display and analysis of macromolecular structures, J Mol Graphics, 14, 51, 10.1016/0263-7855(96)00009-4

Graham, 2001, Tcf4 can specifically recognize β-catenin using alternative conformations, Nat Struct Biol, 8, 1048, 10.1038/nsb718

Poy, 2001, Structure of a human Tcf4-β-catenin complex, Nat Struct Biol, 8, 1053, 10.1038/nsb720