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Different sequence environments of cysteines and half cystines in proteins. Application to predict disulfide forming residues.
Fiser A, Cserzö M, Tüdös E, Simon I. Fiser A, et al. Among authors: simon i. FEBS Lett. 1992 May 11;302(2):117-20. doi: 10.1016/0014-5793(92)80419-h. FEBS Lett. 1992. PMID: 1633841
Proteins with complex architecture as potential targets for drug design: a case study of Mycobacterium tuberculosis.
Mészáros B, Tóth J, Vértessy BG, Dosztányi Z, Simon I. Mészáros B, et al. Among authors: simon i. PLoS Comput Biol. 2011 Jul;7(7):e1002118. doi: 10.1371/journal.pcbi.1002118. Epub 2011 Jul 21. PLoS Comput Biol. 2011. PMID: 21814507 Free PMC article.
Close encounters of the third kind: disordered domains and the interactions of proteins.
Tompa P, Fuxreiter M, Oldfield CJ, Simon I, Dunker AK, Uversky VN. Tompa P, et al. Among authors: simon i. Bioessays. 2009 Mar;31(3):328-35. doi: 10.1002/bies.200800151. Bioessays. 2009. PMID: 19260013
Bioinformatics predictions and well-characterized examples, such as the kinase-inhibitory domain of Cdk inhibitors and the Wiskott-Aldrich syndrome protein (WASP)-homology domain 2 of actin-binding proteins, show that these disordered regions conform to the definition of domains …
Bioinformatics predictions and well-characterized examples, such as the kinase-inhibitory domain of Cdk inhibitors and the Wiskott-Aldrich s …
ANCHOR: web server for predicting protein binding regions in disordered proteins.
Dosztányi Z, Mészáros B, Simon I. Dosztányi Z, et al. Among authors: simon i. Bioinformatics. 2009 Oct 15;25(20):2745-6. doi: 10.1093/bioinformatics/btp518. Epub 2009 Aug 28. Bioinformatics. 2009. PMID: 19717576 Free PMC article.
TOPDOM: database of domains and motifs with conservative location in transmembrane proteins.
Tusnády GE, Kalmár L, Hegyi H, Tompa P, Simon I. Tusnády GE, et al. Among authors: simon i. Bioinformatics. 2008 Jun 15;24(12):1469-70. doi: 10.1093/bioinformatics/btn202. Epub 2008 Apr 23. Bioinformatics. 2008. PMID: 18434342 Free PMC article.
SCide: identification of stabilization centers in proteins.
Dosztányi Z, Magyar C, Tusnády G, Simon I. Dosztányi Z, et al. Among authors: simon i. Bioinformatics. 2003 May 1;19(7):899-900. doi: 10.1093/bioinformatics/btg110. Bioinformatics. 2003. PMID: 12724305
Servers for sequence-structure relationship analysis and prediction.
Dosztányi Z, Magyar C, Tusnády GE, Cserzo M, Fiser A, Simon I. Dosztányi Z, et al. Among authors: simon i. Nucleic Acids Res. 2003 Jul 1;31(13):3359-63. doi: 10.1093/nar/gkg589. Nucleic Acids Res. 2003. PMID: 12824327 Free PMC article.
Transmembrane proteins in the Protein Data Bank: identification and classification.
Tusnády GE, Dosztányi Z, Simon I. Tusnády GE, et al. Among authors: simon i. Bioinformatics. 2004 Nov 22;20(17):2964-72. doi: 10.1093/bioinformatics/bth340. Epub 2004 Jun 4. Bioinformatics. 2004. PMID: 15180935
Disordered binding regions and linear motifs--bridging the gap between two models of molecular recognition.
Mészáros B, Dosztányi Z, Simon I. Mészáros B, et al. Among authors: simon i. PLoS One. 2012;7(10):e46829. doi: 10.1371/journal.pone.0046829. Epub 2012 Oct 3. PLoS One. 2012. PMID: 23056474 Free PMC article.
Local structural disorder imparts plasticity on linear motifs.
Fuxreiter M, Tompa P, Simon I. Fuxreiter M, et al. Among authors: simon i. Bioinformatics. 2007 Apr 15;23(8):950-6. doi: 10.1093/bioinformatics/btm035. Epub 2007 Mar 25. Bioinformatics. 2007. PMID: 17387114
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