modomics.genesilico.pl

Modomics - A Database of RNA Modifications

Are two complementary resources whichpresent RNA metabolism at different levels. While MODOMICS presents RNA modification pathways on the level of nucleosides, RNApathwaysDB deals with RNA metabolism with respect to whole RNA molecules. Our ultimate goal is to integrate these databases, however at the moment the users are invited to consult both of these complementary resources, depending on their needs and interests. Contribute: Everyone is welcome to give feedback concerning Modomics database.

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Modomics - A Database of RNA Modifications | modomics.genesilico.pl Reviews

<META> DESCRIPTION

Are two complementary resources whichpresent RNA metabolism at different levels. While MODOMICS presents RNA modification pathways on the level of nucleosides, RNApathwaysDB deals with RNA metabolism with respect to whole RNA molecules. Our ultimate goal is to integrate these databases, however at the moment the users are invited to consult both of these complementary resources, depending on their needs and interests. Contribute: Everyone is welcome to give feedback concerning Modomics database.

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1 modifications

2 pathways

3 reactions

4 sequences

5 proteins

6 guide rnas

7 publications

8 building

9 blocks

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modifications,pathways,reactions,sequences,proteins,guide rnas,publications,building,blocks,links,downloads,genesilico,modomics,and rnapathwaysdb

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Modomics - A Database of RNA Modifications | modomics.genesilico.pl Reviews

https://modomics.genesilico.pl

Are two complementary resources whichpresent RNA metabolism at different levels. While MODOMICS presents RNA modification pathways on the level of nucleosides, RNApathwaysDB deals with RNA metabolism with respect to whole RNA molecules. Our ultimate goal is to integrate these databases, however at the moment the users are invited to consult both of these complementary resources, depending on their needs and interests. Contribute: Everyone is welcome to give feedback concerning Modomics database.

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modomics.genesilico.pl

1

Modomics - A Database of RNA Modifications

http://modomics.genesilico.pl/sequences

Contribute: Everyone is welcome to give feedback concerning Modomics database. If you have any advice or suggestions for corrections or improvements, please contact: mmika@genesilico.pl.

2

Modomics - A Database of RNA Modifications

http://modomics.genesilico.pl/papers

Get list of all PMID's]. Click on a column name to sort. PubMed ID / DOI. Giardia lamblia RNA cap guanine-N2 methyltransferase (Tgs2). Identification of a novel gene encoding a flavin-dependent tRNA:m5U methyltransferase in bacteria- evolutionary implications. A structural, phylogenetic, and functional study of 15.5-kD/Snu13 protein binding on U3 small nucleolar RNA. Substrate binding analysis of the 23S rRNA methyltransferase RrmJ. Identification of yeast tRNA Um(44) 2-O-methyltransferase (Trm44) and de...

3

Modomics - Downloads

http://modomics.genesilico.pl/downloads

Structures of modified bases in .mol format. Pictures of modified bases. Modified positions in PDB files. List of modified positions in RNA sequences. Ontology of base modifications in OWLLite format. Ontology of base modifications in N3 format. When using Modomics, please cite:. Machnicka MA, Milanowska K, Osman Oglu O, Purta E, Kurkowska M, Olchowik A, Januszewski W, Kalinowski S, Dunin-Horkawicz S, Rother KM, Helm M, Bujnicki JM, Grosjean H. Nucleic Acids Res 2013 Jan 1;41(D1): D262-D267.

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Modomics - Guide RNAs

http://modomics.genesilico.pl/snorna

Contribute: Everyone is welcome to give feedback concerning Modomics database. If you have any advice or suggestions for corrections or improvements, please contact: mmika@genesilico.pl.

5

Modomics - A Database of RNA Modifications

http://modomics.genesilico.pl/help

Overview of the MODOMICS Database. MODOMICS is the first comprehensive database system for biology of RNA modification. It integrates information about the chemical structure of modified nucleosides, their localization in RNA sequences, pathways of their biosynthesis and enzymes that carry out the respective reactions (together with their protein cofactors). Also included are the protein sequences, the structure data (if available), selected references from scientific literature, and links to other d...

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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

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

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

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

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

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

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

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

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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modomics.genesilico.pl

Modomics - A Database of RNA Modifications

Are two complementary resources whichpresent RNA metabolism at different levels. While MODOMICS presents RNA modification pathways on the level of nucleosides, RNApathwaysDB deals with RNA metabolism with respect to whole RNA molecules. Our ultimate goal is to integrate these databases, however at the moment the users are invited to consult both of these complementary resources, depending on their needs and interests. Contribute: Everyone is welcome to give feedback concerning Modomics database.

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