{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,4,30]],"date-time":"2025-04-30T23:24:43Z","timestamp":1746055483924,"version":"3.34.0"},"publisher-location":"Berlin, Heidelberg","reference-count":35,"publisher":"Springer Berlin Heidelberg","isbn-type":[{"type":"print","value":"9783540794493"},{"type":"electronic","value":"9783540794509"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"DOI":"10.1007\/978-3-540-79450-9_36","type":"book-chapter","created":{"date-parts":[[2008,4,29]],"date-time":"2008-04-29T09:54:22Z","timestamp":1209462862000},"page":"390-401","source":"Crossref","is-referenced-by-count":3,"title":["Computational Mutagenesis of E. coli Lac Repressor: Insight into Structure-Function Relationships and Accurate Prediction of Mutant Activity"],"prefix":"10.1007","author":[{"given":"Majid","family":"Masso","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Kahkeshan","family":"Hijazi","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Nida","family":"Parvez","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Iosif I.","family":"Vaisman","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"297","reference":[{"key":"36_CR1","doi-asserted-by":"publisher","first-page":"19","DOI":"10.1016\/S0959-440X(00)00180-9","volume":"11","author":"C.E. Bell","year":"2001","unstructured":"Bell, C.E., Lewis, M.: The Lac repressor: A second generation of structural and functional studies. Curr. Opin. Struct. Biol.\u00a011, 19\u201325 (2001)","journal-title":"Curr. Opin. Struct. Biol."},{"key":"36_CR2","doi-asserted-by":"publisher","first-page":"1245","DOI":"10.1126\/science.271.5253.1245","volume":"271","author":"K.S. Matthews","year":"1996","unstructured":"Matthews, K.S.: The whole lactose repressor. Science\u00a0271, 1245\u20131246 (1996)","journal-title":"Science"},{"key":"36_CR3","doi-asserted-by":"publisher","first-page":"145","DOI":"10.1016\/S1369-5274(98)80004-0","volume":"1","author":"B. Muller-Hill","year":"1998","unstructured":"Muller-Hill, B.: Some repressors of bacterial transcription. Curr. Opin. Microbiol.\u00a01, 145\u2013151 (1998)","journal-title":"Curr. Opin. Microbiol."},{"key":"36_CR4","doi-asserted-by":"publisher","first-page":"334","DOI":"10.1016\/S0968-0004(97)01104-3","volume":"22","author":"H.C. Pace","year":"1997","unstructured":"Pace, H.C., Kercher, M.A., Lu, P., Markiewicz, P., Miller, J.H., Chang, G., Lewis, M.: Lac repressor genetic map in real space. Trends Biochem. Sci.\u00a022, 334\u2013339 (1997)","journal-title":"Trends Biochem. Sci."},{"key":"36_CR5","doi-asserted-by":"publisher","first-page":"521","DOI":"10.1016\/j.crvi.2005.04.004","volume":"328","author":"M. Lewis","year":"2005","unstructured":"Lewis, M.: The lac repressor. C.R. Biol.\u00a0328, 521\u2013548 (2005)","journal-title":"C.R. Biol."},{"key":"36_CR6","doi-asserted-by":"crossref","first-page":"374","DOI":"10.1016\/S0022-2836(66)80234-6","volume":"15","author":"B. Muller-Hill","year":"1966","unstructured":"Muller-Hill, B.: Suppressible regulator constitutive mutants of the lactose system in Escherichia coli. J. Mol. Biol.\u00a015, 374\u2013376 (1966)","journal-title":"J. Mol. Biol."},{"key":"36_CR7","doi-asserted-by":"publisher","first-page":"851","DOI":"10.1006\/jmbi.1998.2253","volume":"284","author":"J. Muller","year":"1998","unstructured":"Muller, J., Barker, A., Oehler, S., Muller-Hill, B.: Dimeric lac repressors exhibit phase-dependent co-operativity. J. Mol. Biol.\u00a0284, 851\u2013857 (1998)","journal-title":"J. Mol. Biol."},{"key":"36_CR8","doi-asserted-by":"crossref","first-page":"669","DOI":"10.1093\/genetics\/76.4.669","volume":"76","author":"M. Pfahl","year":"1974","unstructured":"Pfahl, M., Stockter, C., Gronenborn, B.: Genetic analysis of the active sites of lac repressor. Genetics\u00a076, 669\u2013679 (1974)","journal-title":"Genetics"},{"key":"36_CR9","doi-asserted-by":"crossref","first-page":"110","DOI":"10.1016\/S0021-9258(19)44452-9","volume":"248","author":"T. Platt","year":"1973","unstructured":"Platt, T., Files, J.G., Weber, K.: Lac repressor. Specific proteolytic destruction of the NH 2 -terminal region and loss of the deoxyribonucleic acid-binding activity. J. Biol. Chem.\u00a0248, 110\u2013121 (1973)","journal-title":"J. Biol. Chem."},{"key":"36_CR10","doi-asserted-by":"crossref","first-page":"3359","DOI":"10.1016\/S0021-9258(17)33445-2","volume":"251","author":"A. Schmitz","year":"1976","unstructured":"Schmitz, A., Schmeissner, U., Miller, J.H.: Mutations affecting the quaternary structure of the lac repressor. J. Biol. Chem.\u00a0251, 3359\u20133366 (1976)","journal-title":"J. Biol. Chem."},{"key":"36_CR11","first-page":"57","volume":"3","author":"S. Alberti","year":"1991","unstructured":"Alberti, S., Oehler, S., von Bergmann, B., Kramer, H., Muller-Hill, B.: Dimer-to-tetramer assembly of Lac repressor involves a leucine heptad repeat. New Biol.\u00a03, 57\u201362 (1991)","journal-title":"New Biol."},{"key":"36_CR12","doi-asserted-by":"crossref","first-page":"3227","DOI":"10.1002\/j.1460-2075.1993.tb05992.x","volume":"12","author":"S. Alberti","year":"1993","unstructured":"Alberti, S., Oehler, S., von Bergmann, B., Muller-Hill, B.: Genetic analysis of the leucine heptad repeats of Lac repressor. Embo. J.\u00a012, 3227\u20133236 (1993)","journal-title":"Embo. J."},{"key":"36_CR13","doi-asserted-by":"publisher","first-page":"509","DOI":"10.1006\/jmbi.1996.0479","volume":"261","author":"J. Suckow","year":"1996","unstructured":"Suckow, J., Markiewicz, P., Kleina, L.G., Miller, J., Kisters-Woike, B., Muller-Hill, B.: Genetic studies of the Lac repressor. XV. J. Mol. Biol.\u00a0261, 509\u2013523 (1996)","journal-title":"J. Mol. Biol."},{"key":"36_CR14","doi-asserted-by":"publisher","first-page":"421","DOI":"10.1006\/jmbi.1994.1458","volume":"240","author":"P. Markiewicz","year":"1994","unstructured":"Markiewicz, P., Kleina, L.G., Cruz, C., Ehret, S., Miller, J.H.: Genetic studies of the lac repressor XIV. J. Mol. Biol.\u00a0240, 421\u2013433 (1994)","journal-title":"J. Mol. Biol."},{"key":"36_CR15","doi-asserted-by":"publisher","first-page":"295","DOI":"10.1016\/0022-2836(90)90126-7","volume":"212","author":"L.G. Kleina","year":"1990","unstructured":"Kleina, L.G., Miller, J.H.: Genetic studies of the lac repressor XIII. J. Mol. Biol.\u00a0212, 295\u2013318 (1990)","journal-title":"J. Mol. Biol."},{"key":"36_CR16","doi-asserted-by":"crossref","unstructured":"Vaisman, I.I., Tropsha, A., Zheng, W.: Compositional preferences in quadruplets of nearest neighbor residues in protein structures: Statistical geometry analysis. In: Proceedings of the IEEE Symposia on Intelligence and Systems, pp. 163\u2013168 (1998)","DOI":"10.1109\/IJSIS.1998.685437"},{"key":"36_CR17","doi-asserted-by":"publisher","first-page":"213","DOI":"10.1089\/cmb.1996.3.213","volume":"3","author":"R.K. Singh","year":"1996","unstructured":"Singh, R.K., Tropsha, A., Vaisman, I.I.: Delaunay tessellation of proteins: Four body nearest-neighbor propensities of amino acid residues. J. Comput. Biol.\u00a03, 213\u2013221 (1996)","journal-title":"J. Comput. Biol."},{"key":"36_CR18","doi-asserted-by":"publisher","first-page":"234","DOI":"10.1002\/prot.20968","volume":"64","author":"M. Masso","year":"2006","unstructured":"Masso, M., Lu, Z., Vaisman, I.I.: Computational mutagenesis studies of protein structure-function correlations. Proteins\u00a064, 234\u2013245 (2006)","journal-title":"Proteins"},{"key":"36_CR19","first-page":"191","volume":"54","author":"C.J. Verzilli","year":"2005","unstructured":"Verzilli, C.J., Whittaker, J.C., Stallard, N., Chasman, D.: A hierarchical Bayesian model for predicting the functional consequences of amino acid polymorphisms. Applied Statistics\u00a054, 191\u2013206 (2005)","journal-title":"Applied Statistics"},{"key":"36_CR20","doi-asserted-by":"publisher","first-page":"2199","DOI":"10.1093\/bioinformatics\/btg297","volume":"19","author":"V.G. Krishnan","year":"2003","unstructured":"Krishnan, V.G., Westhead, D.R.: A comparative study of machine-learning methods to predict the effects of single nucleotide polymorphisms on protein function. Bioinformatics\u00a019, 2199\u20132209 (2003)","journal-title":"Bioinformatics"},{"key":"36_CR21","doi-asserted-by":"crossref","unstructured":"Karchin, R., Kelly, L., Sali, A.: Improving functional annotation of non-synonomous SNPs with information theory. Pac. Symp. Biocomput., 397\u2013408 (2005)","DOI":"10.1142\/9789812702456_0038"},{"key":"36_CR22","doi-asserted-by":"publisher","first-page":"3812","DOI":"10.1093\/nar\/gkg509","volume":"31","author":"P.C. Ng","year":"2003","unstructured":"Ng, P.C., Henikoff, S.: SIFT: Predicting amino acid changes that affect protein function. Nucleic Acids Res.\u00a031, 3812\u20133814 (2003)","journal-title":"Nucleic Acids Res."},{"key":"36_CR23","doi-asserted-by":"publisher","first-page":"235","DOI":"10.1093\/nar\/28.1.235","volume":"28","author":"H.M. Berman","year":"2000","unstructured":"Berman, H.M., Westbrook, J., Feng, Z., Gilliland, G., Bhat, T.N., Weissig, H., Shindyalov, I.N., Bourne, P.E.: The Protein Data Bank. Nucleic Acids Res.\u00a028, 235\u2013242 (2000)","journal-title":"Nucleic Acids Res."},{"key":"36_CR24","doi-asserted-by":"publisher","first-page":"469","DOI":"10.1145\/235815.235821","volume":"22","author":"C.B. Barber","year":"1996","unstructured":"Barber, C.B., Dobkin, D.P., Huhdanpaa, H.T.: The quickhull algorithm for convex hulls. ACM Transactions on Mathematical Software\u00a022, 469\u2013483 (1996)","journal-title":"ACM Transactions on Mathematical Software"},{"key":"36_CR25","doi-asserted-by":"publisher","first-page":"209","DOI":"10.1038\/78907","volume":"7","author":"C.E. Bell","year":"2000","unstructured":"Bell, C.E., Lewis, M.: A closer view of the conformation of the Lac repressor bound to operator. Nat. Struct. Biol.\u00a07, 209\u2013214 (2000)","journal-title":"Nat. Struct. Biol."},{"key":"36_CR26","doi-asserted-by":"publisher","first-page":"322","DOI":"10.1016\/S0006-291X(03)00760-5","volume":"305","author":"M. Masso","year":"2003","unstructured":"Masso, M., Vaisman, I.I.: Comprehensive mutagenesis of HIV-1 protease: A computational geometry approach. Biochem. Biophys. Res. Commun.\u00a0305, 322\u2013326 (2003)","journal-title":"Biochem. Biophys. Res. Commun."},{"key":"36_CR27","volume-title":"C4.5: Programs for Machine Learning","author":"R. Quinlan","year":"1993","unstructured":"Quinlan, R.: C4.5: Programs for Machine Learning, San Mateo, CA. Morgan Kaufman Publishers, San Francisco (1993)"},{"key":"36_CR28","doi-asserted-by":"publisher","first-page":"2479","DOI":"10.1093\/bioinformatics\/bth261","volume":"20","author":"E. Frank","year":"2004","unstructured":"Frank, E., Hall, M., Trigg, L., Holmes, G., Witten, I.H.: Data mining in bioinformatics using Weka. Bioinformatics\u00a020, 2479\u20132481 (2004)","journal-title":"Bioinformatics"},{"key":"36_CR29","unstructured":"Fawcett, T.: ROC graphs: Notes and practical considerations for researchers. HPL-2003-4. Hewlett-Packard Labs, Palo Alto (2003)"},{"key":"36_CR30","doi-asserted-by":"crossref","first-page":"29","DOI":"10.1148\/radiology.143.1.7063747","volume":"143","author":"J.A. Hanley","year":"1982","unstructured":"Hanley, J.A., McNeil, B.J.: The meaning and use of the area under a receiver operating characteristic (ROC) curve. Radiology\u00a0143, 29\u201336 (1982)","journal-title":"Radiology"},{"key":"36_CR31","unstructured":"Provost, F., Domingos, P.: Well-trained PETs. CeDER Technical Report IS-00-04. Stern School of Business, New York University, New York (2001)"},{"key":"36_CR32","unstructured":"Dayhoff, M.O., Schwartz, R.M., Orcut, B.C. (eds.): A model for evolutionary change in proteins, Washington D.C. National Biomedical Research Foundation, vol.\u00a05 (1978)"},{"key":"36_CR33","doi-asserted-by":"publisher","first-page":"683","DOI":"10.1006\/jmbi.2001.4510","volume":"307","author":"D. Chasman","year":"2001","unstructured":"Chasman, D., Adams, R.M.: Predicting the functional consequences of non-synonymous single nucleotide polymorphisms: Structure-based assessment of amino acid variation. J. Mol. Biol.\u00a0307, 683\u2013706 (2001)","journal-title":"J. Mol. Biol."},{"key":"36_CR34","doi-asserted-by":"publisher","first-page":"638","DOI":"10.1073\/pnas.95.2.638","volume":"95","author":"J.A. Wrobel","year":"1998","unstructured":"Wrobel, J.A., Chao, S.F., Conrad, M.J., Merker, J.D., Swanstrom, R., Pielak, G.J., Hutchison, C.A.: A genetic approach for identifying critical residues in the fingers and palm subdomains of HIV-1 reverse transcriptase. Proc. Natl. Acad. Sci. U.S.A.\u00a095, 638\u2013645 (1998)","journal-title":"Proc. Natl. Acad. Sci. U.S.A."},{"key":"36_CR35","doi-asserted-by":"publisher","first-page":"105","DOI":"10.1016\/0022-2836(82)90515-0","volume":"157","author":"J. Kyte","year":"1982","unstructured":"Kyte, J., Doolittle, R.F.: A simple method for displaying the hydropathic character of a protein. J. Mol. Biol.\u00a0157, 105\u2013132 (1982)","journal-title":"J. Mol. Biol."}],"container-title":["Lecture Notes in Computer Science","Bioinformatics Research and Applications"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/link.springer.com\/content\/pdf\/10.1007\/978-3-540-79450-9_36.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,1,29]],"date-time":"2025-01-29T23:08:11Z","timestamp":1738192091000},"score":1,"resource":{"primary":{"URL":"http:\/\/link.springer.com\/10.1007\/978-3-540-79450-9_36"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[null]]},"ISBN":["9783540794493","9783540794509"],"references-count":35,"URL":"https:\/\/doi.org\/10.1007\/978-3-540-79450-9_36","relation":{},"subject":[]}}