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Links tagged with 'ribosomes'

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IRESiteDatabase Content

http://www.iresite.org

RNA > Databases

The IRESite presents carefully curated experimental evidence of many eukaryotic viral and cellular internal ribosome entry site (IRES) regions. The IRESite tool provides biologically meaningful information regarding the IRESs and their experimental background (including annotation of IRES secondary structures and IRES trans-acting factors). RNA secondary structures and for searching through the structures currently stored in the database can also be done.

NAR Database Issue 2010
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tagsanimals computational biology dna sequence analysis genetic databases humans nucleic acid conformation nucleic acid databases plasmids ribosomes translational peptide chain initiation viral genome viral rna

OPTIMIZERTool Content

http://genomes.urv.es/OPTIMIZER/

DNA > Structure and Sequence Feature Detection
Expression > Protein Expression

OPTIMIZER is an application that optimizes the codon usage of a DNA sequence. This server can be used to predict and optimize the level expression of a gene in heterologous gene expression systems.

This content is being maintained by ppuigbo.

NAR Web Server Issue 2007
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tagsalgorithms animals base sequence codon computational biology dna dna sequence analysis gene expression gene expression regulation molecular sequence data protein biosynthesis ribosomes

POPSTool Content

http://mathbio.nimr.mrc.ac.uk/wiki/POPS

Protein > 3-D Structural Features

Parameter OPtimised Surfaces (POPS) is an algorithm to calculate accessible surfaces areas at atomic and residue level.

NAR Web Server Issue 2003
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tagsalgorithms amino acids hydrophobic and hydrophilic interactions macromolecular substances molecular models molecular structure nucleic acid conformation nucleic acids protein binding protein conformation proteins ribosomal proteins ribosomal rna ribosomes solvents time factors transfer rna

POPSCOMPTool Content

http://mathbio.nimr.mrc.ac.uk/wiki/POPSCOMP

Protein > Interactions, Pathways, Enzymes

POPSCOMP is a system for analysing the interaction between components of complexes based on calculations of the accessible surface that is buried when the complex is formed.

NAR Web Server Issue 2005
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tagsanti-bacterial agents dna macromolecular substances proteins ribosomes rna

Virtual RibosomeTool Content

http://www.cbs.dtu.dk/services/VirtualRibosome/

DNA > DNA and Genomic Analysis
DNA > Gene Prediction

The Virtual Ribosome is a DNA translation tool with a built-in ORF finder that allows the use of alternative start codons, the IUPAC degenerate DNA alphabet, and all translation tables defined by the NCBI taxonomy group. The tool can also highlight the intron/exon structure of genes using information found in the feature table of GenBank flatfiles in the final translation results.

NAR Web Server Issue 2006
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tagsanimals dna sequence analysis exons initiator codon introns open reading frames protein biosynthesis ribosomes systems integration terminator codon