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diber.iimcb.gov.pl

DIBER/RIBER

The program DIBER takes diffraction data as an input and predicts whether a crystal contains only protein, only B-form DNA or a mixture of both.

http://diber.iimcb.gov.pl/

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DIBER/RIBER | diber.iimcb.gov.pl Reviews
<META>
DESCRIPTION
The program DIBER takes diffraction data as an input and predicts whether a crystal contains only protein, only B-form DNA or a mixture of both.
<META>
KEYWORDS
1 DIBER
2 DNA
3 dna
4 fiber
5 diffraction
6 CCP4
7 crystallography
8 complex
9 protein-dna
10
CONTENT
Page content here
KEYWORDS ON
PAGE
riber,diber,download,riber/diber on line,section for details,authors,on this site,benchmarks,download section,wwwiimcb gov pl
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WSGIServer/0.1 Python/2.6.6
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utf-8
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DIBER/RIBER | diber.iimcb.gov.pl Reviews

https://diber.iimcb.gov.pl

The program DIBER takes diffraction data as an input and predicts whether a crystal contains only protein, only B-form DNA or a mixture of both.

INTERNAL PAGES

diber.iimcb.gov.pl diber.iimcb.gov.pl
1

DIBER/RIBER

http://diber.iimcb.gov.pl/off

On this web-page you may download an open-source version of RIBER/DIBER. Currently Linux and Mac OS X binaries are available. For other operation systems you may compile. RIBER/DIBER from sources or use an on-line version. Here you will also find all the data used for training and testing RIBER/DIBER classifiers. The experiental diffraction datasets are available in the binary MTZ. File format (used in CCP4. Last updated: 09.11.2012.

2

DIBER/RIBER

http://diber.iimcb.gov.pl/benchmarks

How reliable are the RIBER/DIBER predictions? RIBER/DIBER predictions are prepared using a classifier trained on all experimental diffraction datasets available in PDB at the time the methods were developed (March 2009 and July 2011 for DIBER and RIBER respectively, data available in the Download section. Last modified: Thu Aug 18 15:03:06 CET 2011. Last updated: 09.11.2012.

3

DIBER/RIBER on-line

http://diber.iimcb.gov.pl/diberonline

Check your crystal contents on-line! Please follow the Upload a new dataset. Link to predict nucleic acid content of your crystal. The server requires a file in MTZ. Format (used in CCP4. Format (files used by the PDB to store experimental data) with diffraction data to at least 3.0 &Aring resolution. Would you like to see how it works? How does it work? Upload a new dataset. Last updated: 09.11.2012.

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genesilico.pl genesilico.pl

Bujnicki lab - RNAmap2D

http://www.genesilico.pl/software/stand-alone/rnamap2d

SpliProt3D is an online database of representative experimentally determined and computationally predicted structures of proteins of the human spliceosome. RNA Bricks is a database of RNA 3D structure motifs and their contacts, both with themselves and with proteins. The database provides structure-quality score annotations and tools for the RNA 3D structure search and comparison. RNAmap2D is a software tool for calculation of contact and distance maps based on user-defined criteria, and to some extent, ...

iimcb.genesilico.pl iimcb.genesilico.pl

Bujnicki lab - DATABASES

http://iimcb.genesilico.pl/software/databases

SpliProt3D is an online database of representative experimentally determined and computationally predicted structures of proteins of the human spliceosome. RNA Bricks is a database of RNA 3D structure motifs and their contacts, both with themselves and with proteins. The database provides structure-quality score annotations and tools for the RNA 3D structure search and comparison. RNAmap2D is a software tool for calculation of contact and distance maps based on user-defined criteria, and to some extent, ...

iimcb.genesilico.pl iimcb.genesilico.pl

Bujnicki lab - SOFTWARE

http://iimcb.genesilico.pl/software

SpliProt3D is an online database of representative experimentally determined and computationally predicted structures of proteins of the human spliceosome. RNA Bricks is a database of RNA 3D structure motifs and their contacts, both with themselves and with proteins. The database provides structure-quality score annotations and tools for the RNA 3D structure search and comparison. RNAmap2D is a software tool for calculation of contact and distance maps based on user-defined criteria, and to some extent, ...

iimcb.genesilico.pl iimcb.genesilico.pl

Bujnicki lab - PROTMAP2D

http://iimcb.genesilico.pl/software/stand-alone/protmap2d

SpliProt3D is an online database of representative experimentally determined and computationally predicted structures of proteins of the human spliceosome. RNA Bricks is a database of RNA 3D structure motifs and their contacts, both with themselves and with proteins. The database provides structure-quality score annotations and tools for the RNA 3D structure search and comparison. RNAmap2D is a software tool for calculation of contact and distance maps based on user-defined criteria, and to some extent, ...

iimcb.genesilico.pl iimcb.genesilico.pl

Bujnicki lab - SimRNA

http://iimcb.genesilico.pl/software/stand-alone/simrna

SpliProt3D is an online database of representative experimentally determined and computationally predicted structures of proteins of the human spliceosome. RNA Bricks is a database of RNA 3D structure motifs and their contacts, both with themselves and with proteins. The database provides structure-quality score annotations and tools for the RNA 3D structure search and comparison. RNAmap2D is a software tool for calculation of contact and distance maps based on user-defined criteria, and to some extent, ...

iimcb.genesilico.pl iimcb.genesilico.pl

Bujnicki lab - Highlights

http://iimcb.genesilico.pl/achievements/highlights

SpliProt3D is an online database of representative experimentally determined and computationally predicted structures of proteins of the human spliceosome. RNA Bricks is a database of RNA 3D structure motifs and their contacts, both with themselves and with proteins. The database provides structure-quality score annotations and tools for the RNA 3D structure search and comparison. RNAmap2D is a software tool for calculation of contact and distance maps based on user-defined criteria, and to some extent, ...

genesilico.pl genesilico.pl

Bujnicki lab - PROTMAP2D

http://www.genesilico.pl/software/stand-alone/protmap2d

SpliProt3D is an online database of representative experimentally determined and computationally predicted structures of proteins of the human spliceosome. RNA Bricks is a database of RNA 3D structure motifs and their contacts, both with themselves and with proteins. The database provides structure-quality score annotations and tools for the RNA 3D structure search and comparison. RNAmap2D is a software tool for calculation of contact and distance maps based on user-defined criteria, and to some extent, ...

genesilico.pl genesilico.pl

Bujnicki lab - SimRNA

http://www.genesilico.pl/software/stand-alone/simrna

SpliProt3D is an online database of representative experimentally determined and computationally predicted structures of proteins of the human spliceosome. RNA Bricks is a database of RNA 3D structure motifs and their contacts, both with themselves and with proteins. The database provides structure-quality score annotations and tools for the RNA 3D structure search and comparison. RNAmap2D is a software tool for calculation of contact and distance maps based on user-defined criteria, and to some extent, ...

genesilico.pl genesilico.pl

Bujnicki lab - STAND-ALONE

http://www.genesilico.pl/software/stand-alone

SpliProt3D is an online database of representative experimentally determined and computationally predicted structures of proteins of the human spliceosome. RNA Bricks is a database of RNA 3D structure motifs and their contacts, both with themselves and with proteins. The database provides structure-quality score annotations and tools for the RNA 3D structure search and comparison. RNAmap2D is a software tool for calculation of contact and distance maps based on user-defined criteria, and to some extent, ...

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DIBER/RIBER

RIBER/DIBER: learn what's in your crystal. An open-source CCP4 compatible version of RIBER/DIBER is available for download. You can also use RIBER/DIBER without installing a thing. Follow link on top of this page and try RIBER/DIBER on-line. RIBER/DIBER is available for Mac OS X. We have recently prepared a RIBER/DIBER version running on Mac OS X. Check download. With any comments, suggestions or bug-reports. If you find this tool useful please cite:. DIBER: protein, DNA, or both?

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