Significance of protein disorder

Intrinsically Disordered Protein
Dunker, A. K., J. D. Lawson, C. J. Brown, P. Romero, J. S. Oh, C. J. Oldfield, A. M. Campen, C. M. Ratliff, K. W. Hipps, J. Ausio, M. S. Nissen, R. Reeves, C. H. Kang, C. R. Kissinger, R. W. Bailey, M. D. Griswold, W. Chiu, E. C. Garner, and Z. Obradovic, J. Mol. Graphics and Modeling, 2001

Protein disorder and the evolution of molecular recognition: theory, predictions, and observations.
Dunker, A. K., E. Garner, S. Guilliot, P. Romero, K. Albrecht, J. Hart, Z. Obradovic, Pacific Symp. Biocomputing, 1998, 3:473-484.

Thousands of proteins likely to have long disordered regions.
Romero, P., Z. Obradovic, C.R. Kissinger, J.E. Villafranca, S. Guilliot, E. Garner, A.K. Dunker, Pacific Symp. Biocomputing, 1998, 3:437-448.

Crystal structure of calsequestrin from rabbit skeletal muscle sarcoplasmic reticulum.
Wang, S., W.R. Trumble, C.R. Wesson, A.K. Dunker, C.H. Kang, Nat. Struct. Biol., 1998, 5:476-483.

On the importance of being disordered.
Dunker, A. K., Z. Obradovic, P. Romero, C. Kissinger, E. Villafrance, PDB Newsletter, 1997, 81:3-5.

Applications of PONDR®

Identification of intrinsic order and disorder in the DNA damage-recognition protein XPA.
IaKoucheva, L. M., A. L. Kimzey, C. D. Masselon, J. E. Bruce, E. C. Garner, C. J.Brown, A. K. Dunker, R. D. Smith, E. J. Akerman. Protein Science, 2001, 10:560-571.

Instrinsic protein disorder in complete genomes.
Dunker, A. K., Z. Obradovic, P. Romero, E.C. Garner, C.J. Brown, Genome Informatics, 2000, 11:161-171.

Isolation and characterization of cDNAs expressed in the early staged of flavonol-induced pollen germination in petunia.
Guyon, V. N., J. D. Astwood, E. C. Garner, A. K. Dunker, L. P. Taylor. Plant Physiol., 2000, 123:699-710.

Analysis of clusterin structure by prediction plus protease.
Bailaey R. W., M.D. Griswold, E. Garner, P. Romero, Z.Obradovic, A.K. Dunker, Biophys., 1999, 76:A382.

Predicting Binding Regions within Disordered Proteins
Garner E., P. Romero, A.K. Dunker, C. Brown, Z. Obradovic, Genome Informatics, 1999, 10:41-50.

Predicting Disordered Regions from Amino Acid Sequence: Common themes Despite Differing Structural Characterization.
Garner, E., P. Cannon, P. Romero, Z. Obradovic, and A.K. Dunker, Genome Informatics, 1998, 9: 201-214.

Thousands of Proteins Likely to Have Long Disordered Regions
Romero, P., Z. Obradovic, C.R. Kissinger, J.E. Villafranca, E. Garner, S. Guilliot and A.K. Dunker, Pacific Symposium on Biocomputing, 1998, 3:435-446.

Protein Disorder and the Evolution of Molecular Recognition: Theory, Predictions and Observations.
Dunker, A.K., E. Garner, S. Guilliot, P. Romero, K. Albrecht, J. Hart, Z. Obradovic, C. Kissinger, and J.E. Villafranca, Pacific Symposium on Biocomputing, 1998, 3:471-782.

Development of predictors of protein disorder

Flavors of protein disorder.
Vucetic S, Brown CJ, Dunker AK, Obradovic Z. Proteins, 2003, 52: 573-584.

Prediction of boundaries between intrinsically ordered and disordered protein regions
Radivojac P, Obradovic Z, Brown CJ, Dunker AK. Pac. Symp. Biocomput. 2003, 8:216-227.

Intelligent data analysis for protein disorder prediction.
Romero P. Z., Obradovic C., Dunker A. K., Artificial Intelligence Reviews, 2001, 14(6): 447-484.

Sequence complexity of disordered protein.
Romero, P., Z. Obradovic, X. Li, E. C. Garner, C. J. Brown, A.K. Dunker. Proteins: Struc., Funct., Gen., 2001, 42:38-48.

The protein non-folding problem: amino acid determinants of intrinsic order and disorder.
Williams, R. M.,Z. Obradovic, V. Mathura, W. Braun, E. C. Garner, J. Young, S. Takayama, C. J. Brown, and A. K. Dunker. Biocomp., 2001 6:89-100.

Comparing predictors of disordered protein.
Li X., Obradovic Z., Brown C.J., Garner E. C., Dunker A.K. Genome Informatics, 2000, 11:172-184.

Predicting Protein Disorder for N-, C-, and Internal Regions
Li, X.,P. Romero, M. Rani, A. K. Dunker, and Z. Obradovic. Genome Informatics, 1999, 10:30-40.

The Sequence Attribute Method for Determining Relationships Between Sequence and Protein Disorder
Xie, Q., G. E. Arnold, P. Romero, Z. Obradovic, E. Garner, and A. K. Dunker. Genome Informatics Workshop, 1998, 9:193-201.

Sequence data analysis for long disordered regions prediction in the calcineurin family.
Romero, P., Z. Obradovic, and A.K. Dunker. Genome Informatics, 1997, 8:110-124.

Identifying Disordered Regions in Proteins from Amino Acid Sequences.
Romero, P., Z. Obradovic, C.R. Kissinger, J.E. Villafranca, and A.K. Dunker. Proc. I.E.E.E. International Conference on Neural Networks, 1997, 1:90-95.

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e-mail: main@molecularkinetics.com

PONDR® was developed by P. Romero, A.K. Dunker, X. Li, and Z. Obradovic.

Copyright © 2002, 2003 Molecular Kinetics, Inc., all rights reserved.
Access to PONDR® is provided by Molecular Kinetics (6201 La Pas Trail - Ste 160, Indianapolis, IN 46268;
www.molecularkinetics.com; main@molecularkinetics.com) under license from the WSU Research Foundation.
PONDR® is copyright ©1999 by the WSU Research Foundation, all rights reserved.

Molecular Kinetics, Inc., Washington State University and the WSU Research Foundation and their several employees and consultants assume no liability, either real or implied, from the use of PONDR® in any of its forms or the results of its predictions for any damage, loss of time, loss of profit, either real or potential, or any other damage or loss that may arise from the use of PONDR® in any of its forms or from the results of its predictions. Last updated: Apr 26, 2004