:: DESCRIPTION
DILIMOT is a server for finding short (3-8 amino acids), over-represented peptide patterns, or Linear motifs, in a set of proteins.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
NO
:: MORE INFORMATION
Citation
Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W350-5.
DILIMOT: discovery of linear motifs in proteins.
Neduva V1, Russell RB.
:: DESCRIPTION
PyWATER is a PyMOL plugin to find conserved water molecules in X-ray protein structure.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
PyWATER: A PyMOL plugin to find conserved water molecules in proteins by clustering.
Patel H, Grüning BA, Günther S, Merfort I.
Bioinformatics. 2014 Jul 1. pii: btu424
:: DESCRIPTION
Spial (Specificity in alignments) is a web-server that takes a pair of multiple sequence alignments as input and produces an output that highlights positions which are conserved in both alignments (the consensus), and positions which are specific to either alignment.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
NO
:: MORE INFORMATION
Citation
Bioinformatics. 2010 Nov 15;26(22):2906-7. doi: 10.1093/bioinformatics/btq552. Epub 2010 Sep 29.
Spial: analysis of subtype-specific features in multiple sequence alignments of proteins.
Wuster A1, Venkatakrishnan AJ, Schertler GF, Babu MM.
:: DESCRIPTION
FungiFun assigns functional annotations to fungal genes or proteins. Based on different classification methods like FunCat (Functional Catalogue), GO (Gene Ontology) and KEGG (Kyoto Encyclopedia of Genes and Genomes), FungiFun categorizes genes and proteins for fungal species on different levels and conducts an enrichment analysis.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
NO
:: MORE INFORMATION
Citation
FungiFun2: a comprehensive online resource for systematic analysis of gene lists from fungal species.
Priebe S, Kreisel C, Horn F, Guthke R, Linde J.
Bioinformatics. 2014 Oct 7. pii: btu627
Fungal Genet Biol. 2011 Apr;48(4):353-8. doi: 10.1016/j.fgb.2010.11.001. Epub 2010 Nov 10.
FungiFun: a web-based application for functional categorization of fungal genes and proteins.
Priebe S1, Linde J, Albrecht D, Guthke R, Brakhage AA.
:: DESCRIPTION
iSNO-PseAAC is a new predictor which was developed for identifying the SNO sites in proteins by incorporating the position-specific amino acid propensity (PSAAP) into the general form of pseudo amino acid composition (PseAAC).
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
NO
:: MORE INFORMATION
Citation:
PLoS One. 2013;8(2):e55844. doi: 10.1371/journal.pone.0055844. Epub 2013 Feb 7.
iSNO-PseAAC: predict cysteine S-nitrosylation sites in proteins by incorporating position specific amino acid propensity into pseudo amino acid composition.
Xu Y1, Ding J, Wu LY, Chou KC.
:: DESCRIPTION
iSNO-AAPair is a new predictor which was developed by taking into account the coupling effects for all the pairs formed by the nearest residues and the pairs by the next nearest residues along protein chains.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
NO
:: MORE INFORMATION
Citation:
PeerJ. 2013 Oct 3;1:e171. doi: 10.7717/peerj.171. eCollection 2013.
iSNO-AAPair: incorporating amino acid pairwise coupling into PseAAC for predicting cysteine S-nitrosylation sites in proteins.
Xu Y1, Shao XJ, Wu LY, Deng NY, Chou KC.
:: DESCRIPTION
The Victor library is an open-source project dedicated to providing tools for analyzing and manipulating protein structures.
::DEVELOPER
Bicomputing Group, University of Padua
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
The Victor C++ Library for Protein Representation and Advanced Manipulation.
Hirsh L, Piovesan D, Giollo M, Ferrari C, Tosatto SC.
Bioinformatics. 2014 Nov 19. pii: btu773
:: DESCRIPTION
RegStatGel is a proteomic software for identifying differentially expressed proteins based on 2D gel images.
::DEVELOPER
Feng Li (feng.li@fda.hhs.gov)
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Bioinformation. 2011;6(10):389-90. Epub 2011 Aug 2.
RegStatGel: proteomic software for identifying differentially expressed proteins based on 2D gel images.
Li F, Seillier-Moiseiwitsch F.
:: DESCRIPTION
HMMCAS is a program to identify Cas proteins in archaea and bacteria proteome. You can also use this web tool to find Cas proteins in your interested proteome such as giant virus.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
NO
:: MORE INFORMATION
Citation
Chai G, Yu M, Jiang L, Duan Y, Huang J.
HMMCAS: A Web Tool for the Identification and Domain Annotations of CAS Proteins.
IEEE/ACM Trans Comput Biol Bioinform. 2019 Jul-Aug;16(4):1313-1315. doi: 10.1109/TCBB.2017.2665542. Epub 2017 Feb 7. PMID: 28186905.
:: DESCRIPTION
TPpred is a web server for MITOCHONDRIAL targeting peptides prediction in proteins. TPpred is optimized for the prediction of cleavage sites of mitochondrial targeting peptides.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
TPpred3 detects and discriminates mitochondrial and chloroplastic targeting peptides in Eukaryotic proteins.
Savojardo C, Martelli PL, Fariselli P, Casadio R.
Bioinformatics. 2015 Jun 16. pii: btv367
TPpred2: improving the prediction of mitochondrial targeting peptide cleavage sites by exploiting sequence motifs.
Savojardo C, Martelli PL, Fariselli P, Casadio R.
Bioinformatics. 2014 Jun 27. pii: btu411.