Bibliography

This bibliography includes all the papers referenced by DisProt, papers that have cited several key references on disordered proteins, and additional papers found by key word searches. The list is sorted by the first author's last name. Click here to see the distribution per year of the papers in the bibliography.
Last update on June 23rd, 2006. Total number of papers in this bibliography: 2785.

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Takada Y, Singh S, Aggarwal BB. "Identification of a p65 peptide that selectively inhibits NF-kappa B activation induced by various inflammatory stimuli and its role in down-regulation of NF-kappaB-mediated gene expression and up-regulation of apoptosis." J Biol Chem. 2004; 279(15): 15096-15104. PMID: 14711835
 
Takatsy A, Hodrea J, Majdik C, Dan Irimie F, Kilar F. "Role of chemical structure in molecular recognition by transferrin." J Mol Recognit. 2006. PMID: 16703571
 
Takeda S. "Crystal structure of troponin and the molecular mechanism of muscle regulation." J Electron Microsc (Tokyo). 2005; 54(suppl_1): i35-i41. PMID: 16157639
 
Takeda S, Yamashita A, Maeda K, Maeda Y. "Structure of the core domain of human cardiac troponin in the Ca(2+)-saturated form." Nature. 2003; 424(6944): 35-41. PMID: 12840750
 
Takemoto Y. "Recognition and activation by ureas and thioureas: stereoselective reactions using ureas and thioureas as hydrogen-bonding donors." Org Biomol Chem. 2005; 3(24): 4299-306. PMID: 16327888
 
Takeuchi A, Hashiyama K, Arai R, Makino O. "Isolation of a series of single missense mutants of a dna gene of phage psi29, gene 1, utilizing their inhibitory effect on E. coli growth." Genes Genet Syst. 2005; 80(5): 377-83. PMID: 16394589
 
Takeuchi K, Miyajima N, Kobune F, Tashiro M. "Comparative nucleotide sequence analyses of the entire genomes of B95a cell-isolated and vero cell-isolated measles viruses from the same patient." Virus Genes. 2000; 20(3): 253-7. PMID: 10949953
 
Takeuchi T, Mukawa T, Shinmori H. "Signaling molecularly imprinted polymers: molecular recognition-based sensing materials." Chem Rec. 2005; 5(5): 263-75. PMID: 16211586
 
Takeuchi T, Mukawa T, Shinmori H. "Corrigendum to "signaling molecularly imprinted polymers: molecular recognition-based sensing materials"." Chem Rec. 2005; 5(6): 410-1. PMID: 16329097
 
Tamada Y. "New process to form a silk fibroin porous 3-D structure." Biomacromolecules. 2005; 6(6): 3100-6. PMID: 16283733
 
Tamura T, Tamura N, Cejka Z, Hegerl R, Lottspeich F, Baumeister W. "Tricorn protease--the core of a modular proteolytic system." Science. 1996; 274(5291): 1385-9. PMID: 8910281
 
Tanabe, W, Suzuki, S, Muto, Y, Inoue, M, Kigawa, T, Terada, T, Shirouzu, M, Yokoyama, S. "Solution structure of the ARID domain of Jarid1b protein. Primary reference of PDB structure 2EQY: Solution structure of the ARID domain of Jarid1b protein. RIKEN Structural Genomics/Proteomics Initiative. PDB citation." 2007.
 
Tanaka T, Kodama TS, Morita HE, Ohno T. "Electronic and vibrational circular dichroism of aromatic amino acids by density functional theory." Chirality. 2006. PMID: 16736539
 
Tan AY, Manley JL. "The TET family of proteins: functions and roles in disease." J Mol Cell Biol. 2009; 1(2): 82-92. PMID: 19783543
 
Tang TK, Wu MP, Chen ST, Hou MH, Hong MH, Pan FM, Yu HM, Chen JH, Yao CW, Wang AH. "Biochemical and immunological studies of nucleocapsid proteins of severe acute respiratory syndrome and 229E human coronaviruses." Proteomics. 2005; 5(4): 925-37. PMID: 15759315
 
Tang Z, Cun LF, Cui X, Mi AQ, Jiang YZ, Gong LZ. "Design of highly enantioselective organocatalysts based on molecular recognition." Org Lett. 2006; 8(7): 1263-6. PMID: 16562867
 
Tan S, Hunziker Y, Sargent DF, Richmond TJ. "Crystal structure of a yeast TFIIA/TBP/DNA complex." Nature. 1996; 381(6578): 127-51. PMID: 8610010
 
Tan W, Dong Z, Wilkinson TA, Barbas CF 3rd, Chow SA. "Human Immunodeficiency Virus Type 1 Incorporated with Fusion Proteins Consisting of Integrase and the Designed Polydactyl Zinc Finger Protein E2C Can Bias Integration of Viral DNA into a Predetermined Chromosomal Region in Human Cells." J Virol. 2006; 80(4): 1939-48. PMID: 16439549
 
Tan XX, Bondos S, Li L, Matthews KS. "Transcription activation by ultrabithorax Ib protein requires a predicted alpha-helical region." Biochemistry. 2002; 41(8): 2774-85. PMID: 11851425
 
Tapp H, Al-Naggar IM, Yarmola EG, Harrison A, Shaw G, Edison AS, Bubb MR. "MARCKS is a natively unfolded protein with an inaccessible actin-binding site: evidence for long-range intramolecular interactions." J Biol Chem. 2005; 280(11): 9946-56. PMID: 15640140
 
Tarcsa E, Candi E, Kartasova T, Idler WW, Marekov LN, Steinert PM. "Structural and transglutaminase substrate properties of the small proline-rich 2 family of cornified cell envelope proteins." J Biol Chem. 1998; 273(36): 23297-23303. PMID: 9722562
 
Tarkka T, Oikarinen J, Grundstrom T. "Nucleotide and calcium-induced conformational changes in histone H1." FEBS Lett. 1997; 406(1-2): 56-60. PMID: 9109385
 
Tateyama M, Kubo Y. "Dual signaling is differentially activated by different active states of the metabotropic glutamate receptor 1{alpha}." Proc Natl Acad Sci U S A. 2006; 103(4): 1124-8. PMID: 16410359
 
Taubner LM, Bienkiewicz EA, Copie V, Caughey B. "Structure of the Flexible Amino-Terminal Domain of Prion Protein Bound to a Sulfated Glycan." J Mol Biol. 2009. PMID: 19913031
 
Taulier N, Beletskaya IV, Chalikian TV. "Compressibility changes accompanying conformational transitions of apomyoglobin." Biopolymers. 2005; 79(4): 218-29. PMID: 16100718 chalikan@phm.utoronto.ca
 
Tchorzewski M, Boguszewska A, Abramczyk D, Grankowski N. "Overexpression in Escherichia coli, purification, and characterization of recombinant 60S ribosomal acidic proteins from Saccharomyces cerevisiae." Protein Expr Purif. 1999; 15(1): 40-47. PMID: 10024468
 
Tchorzewski M, Boldyreff B, Issinger O, Grankowski N. "Analysis of the protein-protein interactions between the human acidic ribosomal P-proteins: evaluation by the two hybrid system." Int J Biochem Cell Biol. 2000; 32(7): 737-746. PMID: 10856704
 
Tchorzewski M, Krokowski D, Boguszewska A, Liljas A, Grankowski N. "Structural characterization of yeast acidic ribosomal P proteins forming the P1A-P2B heterocomplex." Biochemistry. 2003; 42(12): 3399-3408. PMID: 12653543
 
Teer JK, Machida YJ, Labit H, Novac O, Hyrien O, Marheineke K, Zannis-Hadjopoulos M, Dutta A. "Proliferating human cells hypomorphic for Orc2 and pre-RC formation have a defect in p53 activation and CDK2 kinase activation." J Biol Chem. 2006. PMID: 16407251
 
Teilum K, Kragelund BB, Poulsen FM. "Transient structure formation in unfolded acyl-coenzyme A-binding protein observed by site-directed spin labelling." J Mol Biol. 2002; 324(2): 349-57. PMID: 12441112
 
Tell G, Perrone L, Fabbro D, Pellizzari L, Pucillo C, De Felice M, Acquaviva R, Formisano S, Damante G. "Structural and functional properties of the N transcriptional activation domain of thyroid transcription factor-1: similarities with the acidic activation domains." Biochem J. 1998; 329 ( Pt 2): 395-403. PMID: 9425125
 
Tellinghuisen TL, Foss KL, Treadaway JC, Rice CM. "Identification of residues required for RNA replication in domains II and III of the hepatitis C virus NS5A protein." J. Virol.. 2007; 82(3): 1073-83. PMID: 18032500
 
Tellinghuisen TL, Marcotrigiano J, Gorbalenya AE, Rice CM. "The NS5A protein of hepatitis C virus is a zinc metalloprotein." J. Biol. Chem.. 2004; 279(47): 48576-87. PMID: 15339921
 
Tellinghuisen TL, Marcotrigiano J, Rice CM. "Structure of the zinc-binding domain of an essential component of the hepatitis C virus replicase." Nature. 2005; 435(7040): 374-9. PMID: 15902263
 
Teplova M, Yuan YR, Phan AT, Malinina L, Ilin S, Teplov A, Patel DJ. "Structural basis for recognition and sequestration of UUU(OH) 3' temini of nascent RNA polymerase III transcripts by La, a rheumatic disease autoantigen." Mol Cell. 2006; 21(1): 75-85. PMID: 16387655
 
Terenziani F, Mongin O, Katan C, Bhatthula BK, Blanchard-Desce M. "Effects of Dipolar Interactions on Linear and Nonlinear Optical Properties of Multichromophore Assemblies: A Case Study." Chemistry. 2006. PMID: 16429468
 
Terrak M, Kerff F, Langsetmo K, Tao T, Dominguez R. "Structural basis of protein phosphatase 1 regulation." Nature. 2004; 429(6993): 780-4. PMID: 15164081 dominguez@bbri.org
 
Tesmer JJ, Berman DM, Gilman AG, Sprang SR. "Structure of RGS4 bound to AlF4--activated G(i alpha1): stabilization of the transition state for GTP hydrolysis." Cell. 1997; 89(2): 251-61. PMID: 9108480
 
Teufel DP, Freund SM, Bycroft M, Fersht AR. "Four domains of p300 each bind tightly to a sequence spanning both transactivation subdomains of p53." Proc Natl Acad Sci U S A. 2007; 104(17): 7009-14. PMID: 17438265
 
Teyra J, Doms A, Schroeder M, Pisabarro MT. "SCOWLP: a web-based database for detailed characterization and visualization of protein interfaces." BMC Bioinformatics. 2006; 7: 104. PMID: 16512892
 
Thalhammer A, Hundertmark M, Popova AV, Seckler R, Hincha DK. "Interaction of two intrinsically disordered plant stress proteins (COR15A and COR15B) with lipid membranes in the dry state." Biochim. Biophys. Acta. 2010; 1798(9): 1812-20. PMID: 20510170
 
Thapar R, Mueller GA, Marzluff WF. "The N-terminal domain of the Drosophila histone mRNA binding protein, SLBP, is intrinsically disordered with nascent helical structure." 2004; 43(29): 9390-400. PMID: 15260482
 
Thennarasu S, Lee DK, Tan A, Maloy L, Ramamoorthy A. "Solid-State NMR Investigation of the Membrane-Disrupting Mechanism of Antimicrobial Peptides MSI-78 and MSI-594 Derived From Magainin 2 and Melittin." Biophys J. 2006. PMID: 16603496
 
Thepaut M, Maiorano D, Guichou JF, Auge MT, Dumas C, Mechali M, Padilla A. "Crystal structure of the coiled-coil dimerization motif of geminin: structural and functional insights on DNA replication regulation." J Mol Biol. 2004; 342(1): 275-87. PMID: 15313623
 
Thierry-Mieg N. "A new pooling strategy for high-throughput screening: the Shifted Transversal Design." BMC Bioinformatics. 2006; 7: 28. PMID: 16423300
 
Thirumoorthy K, Nandi N, Vollhardt D, Oliveira ON Jr. "Semiempirical Quantum Mechanical Calculations of Dipolar Interaction between Dipyridamole and Dipalmitoyl Phosphatidyl Choline in Langmuir Monolayers." Langmuir. 2006; 22(12): 5398-402. PMID: 16732669
 
Thomas J, Van Patten SM, Howard P, Day KH, Mitchell RD, Sosnick T, Trewhella J, Walsh DA, Maurer RA. "Expression in Escherichia coli and characterization of the heat-stable inhibitor of the cAMP-dependent protein kinase." J Biol Chem. 1991; 266(17): 10906-11. PMID: 2040607
 
Thompson D, Plateau P, Simonson T. "Free-Energy Simulations and Experiments Reveal Long-Range Electrostatic Interactions and Substrate-Assisted Specificity in an Aminoacyl-tRNA Synthetase." Chembiochem. 2006; 7(2): 337-344. PMID: 16408313
 
Thompson M. "Synthesis, photophysical effects, and DNA targeting properties of oxazole yellow-peptide bioconjugates." Bioconjug Chem. 2006; 17(2): 507-13. PMID: 16536484
 
Thual C, Bousset L, Komar AA, Walter S, Buchner J, Cullin C, Melki R. "Stability, folding, dimerization, and assembly properties of the yeast prion Ure2p." Biochemistry. 2001; 40(6): 1764-73. PMID: 11327838
 
Thual C, Komar AA, Bousset L, Fernandez-Bellot E, Cullin C, Melki R. "Structural characterization of Saccharomyces cerevisiae prion-like protein Ure2." 1999; 274(19): 13666-74. PMID: 10224139
 
Thuduppathy GR, Hill RB. "Acid destabilization of the solution conformation of Bcl-xL does not drive its pH-dependent insertion into membranes." Protein Sci. 2006; 15(2): 248-57. PMID: 16385002
 
Thukral SK, Tavianini MA, Blumberg H, Young ET. "Localization of a minimal binding domain and activation regions in yeast regulatory protein ADR1." Mol Cell Biol. 1989; 9(6): 2360-9. PMID: 2503705
 
Thurieau C, Brosius J, Burne C, Jolles P, Keen JH, Mattaliano RJ, Chow EP, Ramachandran KL, Kirchhausen T. "Molecular cloning and complete amino acid sequence of AP50, an assembly protein associated with clathrin-coated vesicles." DNA. 1988; 7(10): 663-9. PMID: 3148444
 
Tian R, Nie CL, He RQ. "Chaperone-like manner of human neuronal tau towards lactate dehydrogenase." Neurochem Res. 2004; 29(10): 1863-72. PMID: 15532542
 
Tian W, Yu J, Tomchick DR, Pan D, Luo X. "Structural and functional analysis of the YAP-binding domain of human TEAD2." Proc. Natl. Acad. Sci. U.S.A.. 2010; 107(16): 7293-8. PMID: 20368466
 
Tian X, Cecal R, McLaurin J, Manea M, Stefanescu R, Grau S, Harnasch M, Amir S, Ehrmann M, St George-Hyslop P, Kohlmann M, Przybylski M. "Identification and structural characterisation of carboxy-terminal polypeptides and antibody epitopes of Alzheimer's amyloid precursor protein using high-resolution mass spectrometry." Eur J Mass Spectrom (Chichester, Eng). 2005; 11(5): 547-56. PMID: 16322661
 
Tidow H, Melero R, Mylonas E, Freund SM, Grossmann JG, Carazo JM, Svergun DI, Valle M, Fersht AR. "Quaternary structures of tumor suppressor p53 and a specific p53 DNA complex." Proc Natl Acad Sci U S A. 2007; 104(30): 12324-9. PMID: 17620598
 
Tikhonova IG, Boulegue C, Langer I, Fourmy D. "Modeled structure of the whole regulator G-protein signaling-2." Biochem Biophys Res Commun. 2006; 341(3): 715-20. PMID: 16434022
 
Timsit Y, Acosta Z, Allemand F, Chiaruttini C, Springer M. "The role of disordered ribosomal protein extensions in the early steps of eubacterial 50 s ribosomal subunit assembly." Int J Mol Sci. 2009; 10(3): 817-34. PMID: 19399222
 
Timsit, Youri, Fréderic Allemand, Claude Chiaruttini, and Mathias Springer. "Coexistence of two protein folding states in the crystal structure of ribosomal protein L20." Embo J. 2006; 7(10): 1013-1018. PMID: 1618378
 
Titani K, Sasagawa T, Ericsson LH, Kumar S, Smith SB, Krebs EG, Walsh KA. "Amino acid sequence of the regulatory subunit of bovine type I adenosine cyclic 3',5'-phosphate dependent protein kinase." Biochemistry. 1984; 23(18): 4193-9. PMID: 6487597
 
Tkaczuk KL, Obarska A, Bujnicki JM. "Molecular phylogenetics and comparative modeling of HEN1, a methyltransferase involved in plant microRNA biogenesis." BMC Evol Biol. 2006; 6(1): 6. PMID: 16433904
 
Tofaris GK, Spillantini MG. "Alpha-synuclein dysfunction in Lewy body diseases." Mov Disord. 2005; 20 Suppl 12: S37-44. PMID: 16092089
 
Tokiwano T, Endo T, Tsukagoshi T, Goto H, Fukushi E, Oikawa H. "Proposed mechanism for diterpene synthases in the formation of phomactatriene and taxadiene." Org Biomol Chem. 2005; 3(15): 2713-22. PMID: 16032349
 
Tolnay M, Juang YT, Tsokos GC. "Protein kinase A enhances, whereas glycogen synthase kinase-3 beta inhibits, the activity of the exon 2-encoded transactivator domain of heterogeneous nuclear ribonucleoprotein D in a hierarchical fashion." Biochem J. 2002; 363(Pt 1): 127-36. PMID: 11903055
 
Tompa P. "Intrinsically unstructured proteins." Trends Biochem Sci. 2002; 27(10): 527-33. PMID: 12368089
 
Tompa P. "Intrinsically unstructured proteins evolve by repeat expansion." Bioessays. 2003; 25(9): 847-55. PMID: 12938174
 
Tompa P. "The interplay between structure and function in intrinsically unstructured proteins." FEBS Lett. 2005; 579(15): 3346-54. PMID: 15943980
 
Tompa P, Buzder-Lantos P, Tantos A, Farkas A, Szilagyi A, Banoczi Z, Hudecz F, Friedrich P. "On the sequential determinants of calpain cleavage." J Biol Chem. 2004; 279(20): 20775-85. PMID: 14988399
 
Tompa P, Csermely P. "The role of structural disorder in the function of RNA and protein chaperones." Faseb J. 2004; 18(11): 1169-75. PMID: 15284216
 
Tompa P, Szasz C, Buday L. "Structural disorder throws new light on moonlighting." Trends Biochem Sci. 2005; 30(9): 484-9. PMID: 16054818
 
Tong KI, Katoh Y, Kusunoki H, Itoh K, Tanaka T, Yamamoto M. "Keap1 recruits Neh2 through binding to ETGE and DLG motifs: characterization of the two-site molecular recognition model." Mol Cell Biol. 2006; 26(8): 2887-900. PMID: 16581765
 
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Toth A, Kiss E, Herberg FW, Gergely P, Hartshorne DJ, Erdodi F. "Study of the subunit interactions in myosin phosphatase by surface plasmon resonance." Eur J Biochem. 2000; 267(6): 1687-1697. PMID: 10712600
 
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Toyran N, Zorlu F, Severcan F. "Effect of stereotactic radiosurgery on lipids and proteins of normal and hypoperfused rat brain homogenates: a Fourier transform infrared spectroscopy study." Int J Radiat Biol. 2005; 81(12): 911-8. PMID: 16524846
 
Tozawa K, Macdonald CJ, Penfold CN, James R, Kleanthous C, Clayden NJ, Moore GR. "Clusters in an intrinsically disordered protein create a protein-binding site: the TolB-binding region of colicin E9." Biochemistry. 2005; 44(34): 11496-507. PMID: 16114886
 
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Tu S, Teng YC, Yuan C, Wu YT, Chan MY, Cheng AN, Lin PH, Juan LJ, Tsai MD. "The ARID domain of the H3K4 demethylase RBP2 binds to a DNA CCGCCC motif." Nat. Struct. Mol. Biol.. 2008; 15(4): 419-21. PMID: 18270511
 
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Tyler RC, Aceti DJ, Bingman CA, Cornilescu CC, Fox BG, Frederick RO, Jeon WB, Lee MS, Newman CS, Peterson FC, Phillips GN Jr, Shahan MN, Singh S, Song J, Sreenath HK, Tyler EM, Ulrich EL, Vinarov DA, Vojtik FC, Volkman BF, Wrobel RL, Zhao Q, Markley JL. "Comparison of cell-based and cell-free protocols for producing target proteins from the Arabidopsis thaliana genome for structural studies." Proteins. 2005; 59(3): 633-43. PMID: 15789406
 
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Tyukhtenko S, Deshmukh L, Kumar V, Lary J, Cole J, Lemmon V, Vinogradova O. "Characterization of the neuron-specific L1-CAM cytoplasmic tail: naturally disordered in solution it exercises different binding modes for different adaptor proteins." Biochemistry. 2008; 47(13): 4160-4168. PMID: 18321067
 
Tzeng BC, Yeh HT, Wu YL, Kuo JH, Lee GH, Peng SM. "Supramolecular assembly of gold(I) complexes of diphosphines and N,N'-bis-4-methylpyridyl oxalamide." Inorg Chem. 2006; 45(2): 591-8. PMID: 16411694
 
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