profbval_1.0.22-2_all.deb


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Description

profbval - predictor of flexible/rigid protein residues from sequence

Distribution: Ubuntu 16.04 LTS (Xenial Xerus)
Repository: Ubuntu Universe amd64
Package name: profbval
Package version: 1.0.22
Package release: 2
Package architecture: all
Package type: deb
Installed size: 254 B
Download size: 56.37 KB
Official Mirror: archive.ubuntu.com
PROFbval can be useful for both protein structure and function predictions. For instance, a biologist can locate potentially antigenic determinants by identifying the most flexible residues on the protein surface. Additionally, a crystallographer can locate residues that potentially have high experimental B-values. PROFbval takes the following input, further described on profbval(1): * a protein sequence in a FASTA file * secondary structure and solvent accessibility prediction by prof(1) * an HSSP file Background: the mobility of a given residue on the protein surface is related to its functional role. Therefore, identification of extremely rigid or flexible residues on the protein surface is helpful for identifying functionally important residues in proteins. A common measure of atom mobility in proteins is B-value data from x-ray crystallography structures. PROFbval is the first tool to predict normalized backbone B-values from amino-acid sequence.

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    Download

    Binary package: profbval_1.0.22-2_all.deb
    Source package: profbval

    Install Howto

    1. Update the package index:
      # sudo apt-get update
    2. Install profbval deb package:
      # sudo apt-get install profbval

    Files

    • /usr/bin/profbval
    • /usr/share/doc/profbval/README
    • /usr/share/doc/profbval/changelog.Debian.gz
    • /usr/share/doc/profbval/copyright
    • /usr/share/doc/profbval/examples/cad23-fil.hssp
    • /usr/share/doc/profbval/examples/cad23-fil.rdbProf
    • /usr/share/doc/profbval/examples/cad23.f
    • /usr/share/doc/profbval/examples/cad23.profbval.gz
    • /usr/share/man/man1/profbval.1.gz
    • /usr/share/profbval/nn_files/jct.in
    • /usr/share/profbval/scr/PROFbval.pl
    • /usr/share/profbval/scr/createDataFile.pl

    Changelog

    2016-01-08 - Andreas Tille <tille@debian.org> profbval (1.0.22-2) unstable; urgency=medium * Add myself to Uploaders * Moved debian/upstream to debian/upstream/metadata * cme fix dpkg-control * Priority: optional * debhelper 9 * DEP5 fix

    2012-08-14 - Laszlo Kajan <lkajan@rostlab.org> profbval (1.0.22-1) unstable; urgency=low * Initial release in Debian (Closes: #680140)

    2011-05-16 - Laszlo Kajan <lkajan@rostlab.org> profbval (1.0.16) unstable; urgency=low * man page update for multiple output files and formats * moved references to PP standard section

    2011-05-11 - Laszlo Kajan <lkajan@rostlab.org> profbval (1.0.15) unstable; urgency=low * Added ability to create multiple outputs with the intention to save output in multiple formats

    2011-01-12 - Laszlo Kajan <lkajan@rostlab.org> profbval (1.0.14) stable; urgency=low * Made prof output regexp line recognize more prof outputs

    2010-09-20 - Laszlo Kajan <lkajan@rostlab.org> profbval (1.0.13) * Input sequence now converted to upper case before processing (and so lower case sequences are now accepted)

    2010-06-30 - Laszlo Kajan <lkajan@rostlab.org> profbval (1.0.12) * Now accepts `O' as a valid amino acid (for pyrrolysine)

    2010-06-29 - Laszlo Kajan <lkajan@rostlab.org> profbval (1.0.11) * Now accepts `U' as a valid amino acid (for selenocysteine)

    2010-06-22 - Laszlo Kajan <lkajan@rostlab.org> profbval (1.0.10) * Documented mode 5 a bit on the man page

    2010-06-16 - Laszlo Kajan <lkajan@rostlab.org> profbval (1.0.9) * Made profbval completely silent when debug is off and operation is normal

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