> Tag > Links tagged with 'post-translational protein processing'

Links tagged with 'post-translational protein processing'

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AntigenDBDatabase Content

http://www.imtech.res.in/raghava/antigendb/ [open in a new window]

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Human Genome > Databases

AntigenDB contains 500 antigens to pathogenic species curated from the literature and other immunological resources. In AntigenDB, a database entry contains information regarding the sequence, structure, origin, etc. of an antigen with additional information such as B and T-cell epitopes, MHC binding, function, gene-expression and post translational modifications, where available. AntigenDB also provides links to major internal and external databases.

This content is being maintained by raghavagps.

links directory index: 10
TitlePublication YearGoogle Scholar Citation Count
AntigenDB: an immunoinformatics database of pathogen antigens201010
NAR Database Issue 2010
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tagsantigens communicable diseases computational biology epitopes genetic databases humans immune system immunogenetics lymphocytes peptide mapping post-translational protein processing protein databases tertiary protein structure

CPLA 1.0Database Content

http://cpla.biocuckoo.org [open in a new window]

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Protein > Databases

Compendium of protein lysine acetylation (CPLA) database is a resource of manually curated lysine acetylated substrates with their sites.

This content is being maintained by little_xian.

links directory index: 3
TitlePublication YearGoogle Scholar Citation Count
CPLA 1.0: an integrated database of protein lysine acetylation20113
NAR Database Issue 2011
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tagsacetylation histone acetyltransferases histone deacetylases humans lysine post-translational protein processing protein databases proteins systems integration

Human Protein Reference DatabaseDatabase Content

http://www.hprd.org/ [open in a new window]

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Protein > Networks & Interactions, Pathways and Enzymes
Protein > Proteomics

The Human Protein Reference Database (HPRD) is a centralized resource for information about human proteins, their interactions with other human proteins, and protein-disease relationships. The information contained in HPRD is curated by experts, who manually extract it from published literature.

links directory index: 953
TitlePublication YearGoogle Scholar Citation Count
Human protein reference database as a discovery resource for proteomics2004264
Development of human protein reference database as an initial platform for approaching systems biology in humans2003689
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external linksLink on Wikipedia
tagsbrca1 protein computational biology controlled vocabulary disease genomics humans macromolecular substances medical genetics post-translational protein processing protein binding protein databases protein interaction mapping proteins proteome proteomics quaternary protein structure substrate specificity tertiary protein structure

InterProDatabase Content

http://www.ebi.ac.uk/interpro/index.html [open in a new window]

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Protein > Domains and Motifs

Integrated database of commonly used signature databases (e.g. PROSITE, PRINTS, SMART, Pfam, ProDom); text- and sequence-based searches.

links directory index: 3869
TitlePublication YearGoogle Scholar Citation Count
InterPro in 2011: new developments in the family and domain prediction database201211
The InterPro BioMart: federated query and web service access to the InterPro Resource20114
InterPro: the integrative protein signature database2009585
New developments in the InterPro database2007392
InterPro, progress and status in 20052005562
The InterPro Database, 2003 brings increased coverage and new features2003700
InterPro: an integrated documentation resource for protein families, domains and functional sites200299
The InterPro database, an integrated documentation resource for protein families, domains and functional sites2001758
InterPro--an integrated documentation resource for protein families, domains and functional sites2000758
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external linksLink on Wikipedia
tagsalgorithms amino acid repetitive sequences animals computational biology factual databases humans information services metabolic networks and pathways post-translational protein processing protein databases protein sequence analysis proteins search engine sequence alignment systems integration tertiary protein structure

MeMoTool Content

http://www.bioinfo.tsinghua.edu.cn/%7Etigerchen/memo.html [open in a new window]

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Protein > Sequence Features

Methylation Modification Prediction Server (MeMo) is a server that predicts arginine and lysine sites that undergo methylation using a support vector machine (SVM).

links directory index: 41
TitlePublication YearGoogle Scholar Citation Count
MeMo: a web tool for prediction of protein methylation modifications200641
NAR Web Server Issue 2006
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tagsarginine artificial intelligence lysine methylation post-translational protein processing proteins

MODiTool Content

http://prix.uos.ac.kr/research.jsp [open in a new window]

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Protein > Biochemical Features
Protein > Proteomics

Modi is a tool that facilitates the interpretation of tandem mass spectra in order to identify post-translational modifications (PTMs) in a peptide.

links directory index: 31
TitlePublication YearGoogle Scholar Citation Count
MODi: a powerful and convenient web server for identifying multiple post-translational peptide modifications from tandem mass spectra200631
NAR Web Server Issue 2006
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tagsmass spectrometry peptides post-translational protein processing protein databases protein sequence analysis

PDBSiteScanTool Content

http://wwwmgs.bionet.nsc.ru/mgs/systems/fastprot/pdbsitescan.html [open in a new window]

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Protein > 3-D Structural Features

PDBSiteScan takes a PDB file as input, and searches for stuctural matches with the PDBSite set of known functional sites.

links directory index: 63
TitlePublication YearGoogle Scholar Citation Count
PDBSiteScan: a program for searching for active, binding and posttranslational modification sites in the 3D structures of proteins200463
NAR Web Server Issue 2004
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tagsbinding sites catalytic domain hydrolases intracellular signaling peptides and proteins molecular models oncogene proteins post-translational protein processing proteins tertiary protein structure

PeptideMassTool Content

http://us.expasy.org/tools/peptide-mass.html [open in a new window]

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Protein > Biochemical Features

Cleaves a protein sequence with a chosen enzyme and computes masses of the generated peptides.

links directory index: 212
TitlePublication YearGoogle Scholar Citation Count
Detailed peptide characterization using PEPTIDEMASS--a World-Wide-Web-accessible tool1997212
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tagsamino acid sequence factual databases humans molecular sequence data peptides post-translational protein processing

PHOSIDA 2011Database Content

http://www.phosida.com [open in a new window]

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Protein > Databases

PHOSIDA database manages posttranslational modification sites of various species ranging from bacteria to human. It contains phosphorylated, N-glycosylated or acetylated sites. All sites are obtained from high-resolution mass spectrometric data. PHOSIDA is comprised of three main components: the database environment, the prediction platform and the toolkit section. The database environment integrates and combines high-resolution proteomic data with multiple annotations. High-accuracy species-specific phosphorylation and acetylation site predictors, trained on the modification sites contained in PHOSIDA, allow the in silico determination of modified sites on any protein on the basis of the primary sequence. The toolkit section contains methods that search for sequence motif matches or identify de novo consensus, sequences from large scale data sets.

links directory index: 28
TitlePublication YearGoogle Scholar Citation Count
PHOSIDA 2011: the posttranslational modification database201128
NAR Database Issue 2011
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tagshumans post-translational protein processing protein databases protein sequence analysis proteomics species specificity

Phospho.ELMDatabase Content

http://phospho.elm.eu.org/ [open in a new window]

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Protein > Domains and Motifs

Database of experimentally verified phosphorylation sites in eukaryotic proteins. Annotations are done manually and database entries come from and are linked back to scientific literature. Phospho.ELM incorporates the data formerly found in PhosphoBase.

links directory index: 232
TitlePublication YearGoogle Scholar Citation Count
Phospho.ELM: a database of experimentally verified phosphorylation sites in eukaryotic proteins2004232
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external linksLink on Wikipedia
tagsanimals binding sites humans mice phosphorylation post-translational protein processing protein databases proteins rats research design

SUMOspTool Content

http://sumosp.biocuckoo.org/ [open in a new window]

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Protein > Domains and Motifs

SUMOylation Sites Prediction (SUMOsp) predicts sites for sumoylation, a reversible post-translational modification of proteins by the small ubiquitin-related modifiers (SUMO).

links directory index: 131
TitlePublication YearGoogle Scholar Citation Count
Systematic study of protein sumoylation: Development of a site-specific predictor of SUMOsp 2.0200944
SUMOsp: a web server for sumoylation site prediction200687
NAR Web Server Issue 2006
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tagsalgorithms computational biology post-translational protein processing proteins small ubiquitin-related modifier proteins

The Mendel SiteTool Content

http://mendel.imp.ac.at/ [open in a new window]

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Protein > Biochemical Features
Protein > Domains and Motifs
Protein > Localization and Targeting

The Mendel Site contains a collection of tools for predicting lipid postranslational modifications and localization signals in protein sequences.

links directory index: 59
TitlePublication YearGoogle Scholar Citation Count
Prediction of lipid posttranslational modifications and localization signals from protein sequences: big-Pi, NMT and PTS1200359
NAR Web Server Issue 2003
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tagsacyltransferases amino acid motifs animals eukaryotic cells fungal proteins glycine glycosylphosphatidylinositols lipid metabolism molecular sequence data myristic acids peroxisomes plant proteins post-translational protein processing protein sequence analysis protein sorting signals proteins protozoan proteins viral proteins

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