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    Results: 1 to 20 of 140

    1.

    Functionally important segments in proteins dissected using Gene Ontology and geometric clustering of peptide fragments.

    Manikandan K, Pal D, Ramakumar S, Brener NE, Iyengar SS, Seetharaman G.

    Genome Biol. 2008;9(3):R52. Epub 2008 Mar 10.

    PMID:
    18331637
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    2.

    Optimally informative backbone structural propensities in proteins.

    Solis AD, Rackovsky S.

    Proteins. 2002 Aug 15;48(3):463-86.

    PMID:
    12112672
    [PubMed - indexed for MEDLINE]
    3.

    A permissive secondary structure-guided superposition tool for clustering of protein fragments toward protein structure prediction via fragment assembly.

    Wainreb G, Haspel N, Wolfson HJ, Nussinov R.

    Bioinformatics. 2006 Jun 1;22(11):1343-52. Epub 2006 Mar 16.

    PMID:
    16543273
    [PubMed - indexed for MEDLINE]
    Free Article
    4.

    Reducing the computational complexity of protein folding via fragment folding and assembly.

    Haspel N, Tsai CJ, Wolfson H, Nussinov R.

    Protein Sci. 2003 Jun;12(6):1177-87.

    PMID:
    12761388
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    5.

    The Protein Coil Library: a structural database of nonhelix, nonstrand fragments derived from the PDB.

    Fitzkee NC, Fleming PJ, Rose GD.

    Proteins. 2005 Mar 1;58(4):852-4.

    PMID:
    15657933
    [PubMed - indexed for MEDLINE]
    6.

    fRMSDPred: predicting local RMSD between structural fragments using sequence information.

    Rangwala H, Karypis G.

    Comput Syst Bioinformatics Conf. 2007;6:311-22.

    PMID:
    17951834
    [PubMed - indexed for MEDLINE]
    Free Article
    7.

    Cross-over between discrete and continuous protein structure space: insights into automatic classification and networks of protein structures.

    Pascual-GarcĂ­a A, Abia D, Ortiz AR, Bastolla U.

    PLoS Comput Biol. 2009 Mar;5(3):e1000331. Epub 2009 Mar 27.

    PMID:
    19325884
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    8.

    Comparison of protein fragments identified by limited proteolysis and by computational cutting of proteins.

    Tsai CJ, Polverino de Laureto P, Fontana A, Nussinov R.

    Protein Sci. 2002 Jul;11(7):1753-70.

    PMID:
    12070328
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    9.

    FoldAmyloid: a method of prediction of amyloidogenic regions from protein sequence.

    Garbuzynskiy SO, Lobanov MY, Galzitskaya OV.

    Bioinformatics. 2010 Feb 1;26(3):326-32. Epub 2009 Dec 17.

    PMID:
    20019059
    [PubMed - indexed for MEDLINE]
    Free Article
    10.

    Dihedral-angle information entropy as a gauge of secondary structure propensity.

    Zhong S, Moix JM, Quirk S, Hernandez R.

    Biophys J. 2006 Dec 1;91(11):4014-23. Epub 2006 Sep 15.

    PMID:
    16980371
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    11.

    Advances and pitfalls in protein structure prediction.

    Cozzetto D, Tramontano A.

    Curr Protein Pept Sci. 2008 Dec;9(6):567-77. Review.

    PMID:
    19075747
    [PubMed - indexed for MEDLINE]
    12.

    Potential folding-function interrelationship in proteins.

    Barzilai A, Kumar S, Wolfson H, Nussinov R.

    Proteins. 2004 Sep 1;56(4):635-49.

    PMID:
    15281117
    [PubMed - indexed for MEDLINE]
    13.

    Combinatorial model for sequence and spatial motif discovery in short sequence fragments: examples from beta-barrel membrane proteins.

    Jackups R Jr, Liang J.

    Conf Proc IEEE Eng Med Biol Soc. 2006;1:3470-3.

    PMID:
    17947032
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    14.

    Evolutionary method for the assembly of rigid protein fragments.

    De Sancho D, Prieto L, Rubio AM, Rey A.

    J Comput Chem. 2005 Jan 30;26(2):131-41.

    PMID:
    15584079
    [PubMed - indexed for MEDLINE]
    15.

    Clustering of protein structural fragments reveals modular building block approach of nature.

    Tendulkar AV, Joshi AA, Sohoni MA, Wangikar PP.

    J Mol Biol. 2004 Apr 30;338(3):611-29.

    PMID:
    15081817
    [PubMed - indexed for MEDLINE]
    16.

    Prediction of protein structure by emphasizing local side-chain/backbone interactions in ensembles of turn fragments.

    Fang Q, Shortle D.

    Proteins. 2003;53 Suppl 6:486-90.

    PMID:
    14579337
    [PubMed - indexed for MEDLINE]
    17.

    Protein fragment clustering and canonical local shapes.

    Hunter CG, Subramaniam S.

    Proteins. 2003 Mar 1;50(4):580-8.

    PMID:
    12577264
    [PubMed - indexed for MEDLINE]
    18.

    Determination of helix orientations in proteins.

    Tatulian SA.

    Comput Biol Chem. 2008 Oct;32(5):370-4. Epub 2008 Jul 7.

    PMID:
    18602867
    [PubMed - indexed for MEDLINE]
    19.

    REPETITA: detection and discrimination of the periodicity of protein solenoid repeats by discrete Fourier transform.

    Marsella L, Sirocco F, Trovato A, Seno F, Tosatto SC.

    Bioinformatics. 2009 Jun 15;25(12):i289-95.

    PMID:
    19478001
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    20.

    Joint evolutionary trees: a large-scale method to predict protein interfaces based on sequence sampling.

    Engelen S, Trojan LA, Sacquin-Mora S, Lavery R, Carbone A.

    PLoS Comput Biol. 2009 Jan;5(1):e1000267. Epub 2009 Jan 23.

    PMID:
    19165315
    [PubMed - indexed for MEDLINE]
    Free PMC Article

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