Literature DB >> 18174182

A note on difficult structure alignment problems.

Manfred J Sippl1, Markus Wiederstein.   

Abstract

UNLABELLED: Progress in structural biology depends on several key technologies. In particular tools for alignment and superposition of protein structures are indispensable. Here we describe the use of the TopMatch web service, an effective computational tool for protein structure alignment, for the visualization of structural similarities, and for highlighting relationships found in protein classifications. We provide several instructive examples. AVAILABILITY: TopMatch is available as a public web service at http://services.came.sbg.ac.at.

Mesh：

Substances：

Year:  2008        PMID： 18174182     DOI： 10.1093/bioinformatics/btm622

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


  45 in total

1.  Analyzing of expression of novel polypeptide complexes consisting of Shiga toxin B subunit and Adherence Fimbriae of Escherichia coli based on in silico modeling.

Authors:  Zeinab Noroozian; Mana Oloomi; Saeid Bouzari
Journal:  J Mol Model       Date:  2012-04-24       Impact factor: 1.810

2.  The v-myc-induced Q83 lipocalin is a siderocalin.

Authors:  Nicolas Coudevylle; Leonhard Geist; Matthias Hötzinger; Markus Hartl; Georg Kontaxis; Klaus Bister; Robert Konrat
Journal:  J Biol Chem       Date:  2010-09-08       Impact factor: 5.157

3.  Single-molecule studies on PolySUMO proteins reveal their mechanical flexibility.

Authors:  Hema Chandra Kotamarthi; Riddhi Sharma; Sri Rama Koti Ainavarapu
Journal:  Biophys J       Date:  2013-05-21       Impact factor: 4.033

4.  Accuracy analysis of multiple structure alignments.

Authors:  Christoph Berbalk; Christine S Schwaiger; Peter Lackner
Journal:  Protein Sci       Date:  2009-10       Impact factor: 6.725

Review 5.  The protein meta-structure: a novel concept for chemical and molecular biology.

Authors:  Robert Konrat
Journal:  Cell Mol Life Sci       Date:  2009-08-19       Impact factor: 9.261

6.  Characterization of the wheat endosperm transfer cell-specific protein TaPR60.

Authors:  Nataliya Kovalchuk; Jessica Smith; Margaret Pallotta; Rohan Singh; Ainur Ismagul; Serik Eliby; Natalia Bazanova; Andrew S Milligan; Maria Hrmova; Peter Langridge; Sergiy Lopato
Journal:  Plant Mol Biol       Date:  2009-06-10       Impact factor: 4.076

7.  Biophysical characterizations of human mitochondrial transcription factor A and its binding to tumor suppressor p53.

Authors:  Tuck Seng Wong; Sridharan Rajagopalan; Stefan M Freund; Trevor J Rutherford; Antonina Andreeva; Fiona M Townsley; Miriana Petrovich; Alan R Fersht
Journal:  Nucleic Acids Res       Date:  2009-09-15       Impact factor: 16.971

8.  MUSTANG-MR structural sieving server: applications in protein structural analysis and crystallography.

Authors:  Arun S Konagurthu; Cyril F Reboul; Jason W Schmidberger; James A Irving; Arthur M Lesk; Peter J Stuckey; James C Whisstock; Ashley M Buckle
Journal:  PLoS One       Date:  2010-04-06       Impact factor: 3.240

9.  deconSTRUCT: general purpose protein database search on the substructure level.

Authors:  Zong Hong Zhang; Kavitha Bharatham; Westley A Sherman; Ivana Mihalek
Journal:  Nucleic Acids Res       Date:  2010-06-03       Impact factor: 16.971

10.  COPS--a novel workbench for explorations in fold space.

Authors:  Stefan J Suhrer; Markus Wiederstein; Markus Gruber; Manfred J Sippl
Journal:  Nucleic Acids Res       Date:  2009-05-22       Impact factor: 16.971
View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.