Literature DB >> 12176841

Domain fishing: a first step in protein comparative modelling.

B Contreras-Moreira1, P A Bates.   

Abstract

UNLABELLED: To optimize the search for structural templates in protein comparative modelling, the query sequence is split into domains. The initial list of templates for each domain, extracted from PFAM plus PDB and SCOP, is then ranked according to sequence identity (%ID), coverage and resolution. If %ID is less than 30, secondary structure matching is used to filter out false templates. AVAILABILITY: http://www.bmm.icnet.uk/~3djigsaw/dom_fish

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Year:  2002        PMID： 12176841     DOI： 10.1093/bioinformatics/18.8.1141

Source DB:  PubMed          Journal:  Bioinformatics        ISSN： 1367-4803            Impact factor:   6.937


  62 in total

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Journal:  Virus Genes       Date:  2012-06-05       Impact factor: 2.332

2.  ASTRO-FOLD: a combinatorial and global optimization framework for Ab initio prediction of three-dimensional structures of proteins from the amino acid sequence.

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Journal:  Biophys J       Date:  2003-10       Impact factor: 4.033

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Authors:  Richa Jaiswal; Ronak Y Patel; Jayant Asthana; Bhavya Jindal; Petety V Balaji; Dulal Panda
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4.  Isoform-specific targeting and interaction domains in human nicotinamide mononucleotide adenylyltransferases.

Authors:  Corinna Lau; Christian Dölle; Toni I Gossmann; Line Agledal; Marc Niere; Mathias Ziegler
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5.  Functional characterization and molecular mechanism exploration of three granulin epithelin precursor splice variants in biomineralization of the pearl oyster Pinctada fucata.

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Journal:  Mol Genet Genomics       Date:  2015-09-20       Impact factor: 3.291

6.  Targeting the ubiquitin-conjugating enzyme E2D4 for cancer drug discovery-a structure-based approach.

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7.  Structural model and spectroscopic characteristics of the FMO antenna protein from the aerobic chlorophototroph, Candidatus Chloracidobacterium thermophilum.

Authors:  Jianzhong Wen; Yusuke Tsukatani; Weidong Cui; Hao Zhang; Michael L Gross; Donald A Bryant; Robert E Blankenship
Journal:  Biochim Biophys Acta       Date:  2010-09-25

8.  Multiplicity of carbohydrate-binding sites in beta-prism fold lectins: occurrence and possible evolutionary implications.

Authors:  Alok Sharma; Divya Chandran; Desh D Singh; M Vijayan
Journal:  J Biosci       Date:  2007-09       Impact factor: 1.826

9.  Evidence that the xylanase activity from Sulfolobus solfataricus Oalpha is encoded by the endoglucanase precursor gene (sso1354) and characterization of the associated cellulase activity.

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10.  A novel mutation in murine hepatitis virus nsp5, the viral 3C-like proteinase, causes temperature-sensitive defects in viral growth and protein processing.

Authors:  Jennifer S Sparks; Eric F Donaldson; Xiaotao Lu; Ralph S Baric; Mark R Denison
Journal:  J Virol       Date:  2008-04-02       Impact factor: 5.103
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