...ascii G4IPDB Home BROWSE SEARCH G4-Predictor tool CONTACT    G4IPDB is an unique and interactive database of proteins that interact with G-quadruplex forming nucleic acid sequences. This protein database contains the comprehensive information of nucleic acid targets, targets name, target sequences, delta-Tm values, binding constant values, dissociation constant values, genes name, gene synonyms, FASTA sequences of proteins, UniProt ID of proteins, nucleic acid interacting residues, PDB ID, interaction ID of proteins, the link for GeneBank database...

...x0) curvatureStatistical TestT-TestWelch TestAdditional NormalizationNoneMeanMedian Missing Value Imputation shift shrink General Plotting Options Label Protein Sub Title Colour Scheme Label for X-axis Label for Y-axis Input File options...With the underlying hyberbolic curve parameters and other statistics, user can intuitively isolate the true protein interaction partners from the false positives, without the need of writing a code. With its ftp...

...aryamontri, BioGRID Rezarta Islamaj Doğan, NCBI Donald C. Comeau, NCBI W. John Wilbur, NCBIOverviewProtein-protein molecular interaction (MI) information is of great importance both in the field of experimental biology as well as from the perspective of systems biology and bioinformatics [1]. Thus, many efforts have been made to capture this information in molecular interaction databases such as BioGRID [2], IntAct [3] and DIP [4]. Due to the rapid increase...

...www.csbio.sjtu.edu.cn/bioinf/IPMiner/ text/html; charset=utf-8 IPMiner: Hidden ncRNA-protein interaction sequential pattern mining with stacked autoencoder for accurate computational prediction IPMiner: Hidden ncRNA-protein interaction sequential pattern mining with stacked autoencoder for accurate computational prediction [Introduction]   [Code and...role in different biological processes, such as post-transcriptional gene regulation. It always functions through interacting with proteins. To understand the functions of ncRNAs, a fundamental step is to identify which protein interacts with this ncRNA. Therefore it is promising to computationally predict RNA-binding protein (RBP). In this study, we propose a computational method IPMiner to predict ncRNA-protein interactions...

...syringae] pv. tomato str. DC3000 Get selected INTERACTOMEIf you want to filter out inter-species interactions select "YES" and download againYESNO SearchOne protein name: Use Uniprot Name (e.g. "RASK_HUMAN"), UniProt AC (e.g. "P01116") or ENTREZ Gene Symbol (e.g. "KRAS")Select OrganismAll OrganismsHomo SapiensMus musculusCaenorhabditis elegansDrosophila melanogasterArabidopsis thalianaSaccharomyces cerevisiaeEscherichia coliExamples: HRAS, CCNA2_HUMAN, IL3RA , Q03330, SWI5_YEASTList of proteins (one per line):Use Uniprot Name (e.g. "RASK_HUMAN"), UniProt AC (e.g. "P01116...

...InterEvDock/ text/html; charset=utf-8 InterEvDock InterEvDockA docking server to predict the structure of protein-protein interactions using evolutionary information.OverviewWhy InterEvDock ?Run InterEvDockLatest newsInterEvDock designWhat InterEvDock does not performFeaturesLimitationsUsageInputResultsVisualization and post-processingExamplesBenchmarkReferences OverviewThis website is free and open to all users and there is no login requirement. Two protein structures and their respective multiple sequence alignments are used to predict binding modes through a...

...PredLast updated at 2015-12-07 06:13:08 Predicting physiologically relevant SH3 domain mediated protein-protein interactions in yeastShobhit Jain and Gary Bader MotivationMany intracellular signaling processes are mediated by interactions involving peptide recognition modules such as SH3 domains. These domains bind to small, linear protein sequence motifs which can be identified using high-throughput experimental screens such as phage display...

27208273 http://netbio.sjtu.edu.cn/arappinet/ text/html; charset=us-ascii Welcome to AraPPINetAraPPINet - Protein-Protein Interaction Network for Arabidopsis The global Arabidopsis PPI network (AraPPINet) that was inferred from both three-dimensional structures and functional evidence and that encompasses 316,747 high-confidence interactions among 12,574 proteins(download arappinet full dataset). AraPPINet exhibited high predictive power for discovering protein interactions at a 50% true positive rate and for discriminating positive interactions from similar protein pairs...

...UbiNet UbiNet is a knowledge-based system that could provide potential E3 ligases for ubiquitinated proteins by the information of protein-protein interactions and substrate site specificities. In eukaryotes, protein ubiquitination catalyzed by E3 ubiquitin ligases plays crucial roles in regulating a variety of biological...there exists no resource designed to explore the regulatory networks of E3 ligases for ubiquitinated proteins in humans. Therefore, the UbiNet was designed to provide a full investigation of protein ubiquitination networks by integrating all available ubiquitinome datasets, experimentally verified E3 ligases, and protein-protein interactions. Moreover, UbiNet could provide potential E3 ligases for ubiquitinated proteins by the information of protein...

...Structure Predictionchunk-TASSERMetaTASSERpro-sp3-TASSERTASSER-VMTProtein Structure AlignmentFr-TM-aligniAlignDNA-binding PredictionDBD-ThreaderDBD-HunterDP-dock Protein Function PredictionFINDSITE-metalLigand Docking/ScreeningFINDSITECOMB Personalized MedicineENTPRISE DR.PRODISDownloadsAPocCavitatorEFICAz2.5 Fr-TM-align GOAP iAlign...Lite and MetaTASSER and DBD-Hunter, and the enzyme function inference engine EFICaz2. MetaTASSER - a protein structure prediction server that uses three state-of-the-art threading methods PROSPECTOR_3, SP3...

...3.0 The ChemProt 3.0 server is a ressource of annotated and predicted chemical-protein interactions. The server is a compilation of over 1.7 mio unique chemicals with biological activity for more than 20000 proteins. ChemProt can assist in the in silico evaluation of small molecules (drugs, environmental chemicals and natural products) with the integration of molecular, cellular and disease-associated proteins complexes. You are welcome to read the Help page in order to get more information...

...bclab.inha.ac.kr/pridictor/ text/html; charset=utf-8 PRIdictor As many structures of protein-RNA complexes have been known in the past years, several computational methods have been developed...the past years, several computational methods have been developed to predict RNA-binding sites in protein. However, its inverse problem (i.e., predicting protein-binding sites in RNA) has received much less attention. Furthermore, most of the methods that predict RNA-binding sites in protein do not consider interaction partners (i.e., RNAs) of a protein, so they always predict the same binding sites for a given protein sequence even if...

...chromatid segregation•cell cycle checkpoint•DNA replication checkpoint•DNA damage checkpoint•regulation of cyclin-dependent protein serine/threonine kinase activity•G1/S transition of mitotic cell cycle•regulation of transcription involved...•small nucleolar ribonucleoprotein complex assembly•box H/ACA snoRNP assembly•flocculation via cell wall protein-carbohydrate interaction•meiotic DNA double-strand break processing•meiotic DNA recombinase assembly•meiotic joint molecule formation•resolution...

...phase transitions that drive ribonucleoprotein granule assembly. In this paper, we report many PLDs in proteins associated with paraspeckles, subnuclear bodies that form around long noncoding RNA. We mapped the interactome network of paraspeckle proteins, finding enrichment of PLDs. We show that one protein, RBM14, connects key paraspeckle subcomplexes via interactions mediated by its PLD. We further show that the RBM14 PLD, as well as the...

25892709 http://digbio.missouri.edu/IEW/index.html text/plain; charset=us-ascii Essential Protein Identification Based on Essential Protein-Protein Interaction Prediction by Integrated Edge WeightsEssential Protein Identification Based on Essential Protein-Protein Interaction Prediction by Integrated Edge Weights[Introduction][Workflow][Result][Script]1. IntroductionIntegrated Edge Weights (IEW) is a novel computational method to identify essential proteins. It works by ranking protein-protein interactions according to their integrated edge weights first, and then identified sub PPI networks consisting...

...io/mlppi/ text/html; charset=us-ascii MLPPIView on GitHubMLPPIMulti-level machine learning prediction of protein-protein interactionsDownload this project as a .zip file Download this project as a tar.gz fileAuthorsJulian Zubek, Marcin Tatjewski, Adam Boniecki, Maciej Mnich, Subhadip Basu, Dariusz PlewczynskiCorresponding author: d.plewczynski@cent.uw.edu.plAbstractAccurate identification of protein-protein interactions (PPI) is the key step in understanding proteins' biological functions, which are typically context-dependent. Many existing PPI predictors rely on aggregated features...

...et al. 2015Received: 14 February 2015Accepted: 22 May 2015Published: 6 June 2015AbstractBackgroundDuring spliceosome assembly, protein-protein interactions (PPI) are sequentially formed and disrupted to accommodate the spatial requirements of pre-mRNA substrate recognition and catalysis. Splicing activators and repressors, such as SR proteins and hnRNPs, modulate spliceosome assembly and regulate alternative splicing. However, it remains unclear how they differentially interact with the core spliceosome to perform their functions.ResultsHere, we investigate the protein connectivity of...

...platform for users to explore biomedical literature resourse (PubMed) using multiple keywords and extract gene/protein(s) name, drug(s), disease(s) centered information along with their relation/interaction from text and databases. PALM-IST provides users a platform where data and literature mining...data mining) and unstructured data (from text mining) can be used to extract novel association/interaction between biological entities such as proteins, diseases, or drugs, to generate meta-pathways and further to identify key crosstalk and bottleneck proteins. Further, PALM-IST also enables users to assemble human pathways and protein-protein interaction network (PPIN) using information extracted from text and databases. FEATURES 1. Real time search...

...caps.ncbs.res.in/dockscore/ text/html; charset=us-ascii DockScore - a webserver for ranking protein-protein docked posesDOCKSCORE: a webserver for ranking protein-protein docked posesHome | Help | Methods | Example Run | GroupDOCKSCORE: a webserver for ranking protein-protein docked poses Interactions at the molecular level in the cellular environment play a very crucial role in maintaining the physiological functioning of the cell. These molecular interactions exist at varied levels viz. protein-protein interactions, protein-nucleic acid interactions or protein-small...

...LCB Group Databases & ServersPublicationsDownloadable Datasets Home » Computational Biology » Downloadable DatasetsComputational BiologyDownloadable DatasetsHuman Tissue-specific Protein-Protein Interactions (TS-PPI)Human TS-PPI is compiled by integrating non-redundant human protein-protein interaction (PPI) data with gene expression data. The union of interactions stored in publicly available, literature curated databases: BioGrid (Stark et al. 2011), DIP (Salwinski...

25792605 http://songyanglab.sysu.edu.cn/telopin/ text/html; charset=us-ascii TeloPIN: HomeTelomeric Proteins Interaction NetworkHomeProtein-ProteinBrowserStatistics and DownloadProtein-DNATeloChIP browserTelomeric Proteins ChIPTelomere-associated ProteinsStatistics and DownloadProtein-RNABrowserStatistics and DownloadProtein-DNA-RNABrowser and DownloadTutorial/ExamplesWelcome to TeloPIN DatabaseTelomeric Proteins Interaction Network(TeloPIN) Database is a collection of telomeric protein Protein-Protein Interaction (PPI), Protein-DNA Interaction and Protein-RNA Interaction data in mammalian cell from scientific literature and GEO database. The goal of database is...

...links by similar phylogenetic profiles between two C. neoformans genesHS-HTAssocialogs by high-throughput human protein-protein interactionsHS-LCAssocialogs by small/medium-scale human protein-protein interactions (collected from protein-protein interaction data bases)SC-CCAssocialogs by co-citation of two genes across 46,111 PubMed Medline...yeast genes (based on high-dimensional gene expression data)SC-DCAssocialogs by co-occurrence of protein domains between two yeast coding genesSC-GTAssocialogs by similar profiles of yeast genetic interaction partnersSC-HTAssocialogs by high-throughput yeast protein-protein interactionsSC-LCAssocialogs by small/medium-scale yeast protein-protein interactions (collected from protein-protein interaction data bases)SC-TSAssocialogs by protein ineteractions from yeast tertiary...

25348397 http://comppi.linkgroup.hu/ text/html; charset=us-ascii ComPPI - Main PageCompartmentalized Protein-Protein Interaction DatabaseHomeSearchDownloadsHelpTutorialContact UsWhat is ComPPI?Protein-protein interaction networks are spatially and temporally merged from the results of various experimental and predicting methods. These often ignore localization data, which in turn deteriorates the data quality and its predictive potential.We present ComPPI, the compartmentalized protein-protein interaction database, which provides qualitative information on the interactions, proteins and their localizations integrated from multiple...

25078396 http://fizz.cmp.uea.ac.uk/dyndom/interface/ text/plain; charset=us-ascii DynDom - Protein Domain Movements   Classification of Domain Movements in Proteins based on the Effect of the...1T9A (A) 1JSC (A) View "Acetolactate Synthase, Catabolic" 1OZH (B) 1OZF (A) View Acetylcholine-Binding Protein 2BYS (E) 2BR8 (E) View Acetyl Transferase 1S7K (A) 1Z9U (A) View "Acetyltransferase, Gnat Family" 2I00 (B) 2I00 (F) View Aconitase (E.C.4.2.1.3) 8ACN (null) 5ACN (null) View Actin Interacting Protein 1 1NR0 (A) 1PEV (A) View Adapter-Related Protein Complex 2 Alpha 2 Subunit 1W80 (A) 1KYU (A) View Adenylosuccinate Synthetase 1LOO (A) 1IWE...

...instruction manual, the sequence of the human genome provides a list of about 25,000 proteins (the molecular machines of life), the functions of more than half of which are unknown. Moreover, analyzing the individual parts tells one very little about their synergistic interactions. Systems Biology seeks to understand how the components of complex living systems interact and give rise to life and how their malfunction causes disease.Read moreResearch HighlightsGeorgia Tech...

...A,B,inhibitor), GO_term(B,'elevation of cytosolic calcium ion concentration involved in G-protein signaling coupled to IP3 second messenger') 9,1 SEP(A) :- drug_has_target(A,B...norfloxacin',HPCCchem) 8,1 SEP(A) :- drug_has_target(A,B,inhibitor), GO_term(B,'protein binding'), category(A,'Analgesics, Non-Narcotic') 8,1 SEP(A) :- drug_has_target(A,B,inhibitor), interact(B,C), pathway(C,'Pathogenic Escherichia coli infection',KEGG) 17,1 SEP(A) :- drug_has_target(A,B,activator), interact(B,C), interact(C,'Ankyrin-2') 5,0 SEP(A) :- drug_has_target(A,B,inhibitor), GO...

...PEP-SiteFinder/ text/html; charset=utf-8 PEP-SiteFinder PEP-SiteFinderA service to identify candidate protein-peptide interaction sites.OverviewWhy PEP-SiteFinder ?Run PEP-SiteFinderLatest newsPEP-SiteFinder' designWhat is PEP-SiteFinder not ?FeaturesLimitationsUsageInputResultsExamplesBenchmarkReferencesOverview Protein structure and peptide sequence to identify candidate sites of interactions on protein surface. Why PEP-SiteFinder ? The recent years have seen increased interest for peptides to probe molecular interactions, or for the early design of candidate therapeutics, which makes higly desirable the detailled caracterization...

...protein 253111SCAMP310067Secretory carrier membrane protein 354111IL18BP10068Interleukin 18 binding protein55111RWDD2B10069C21orf6 protein56110CDH81006Cadherin 857110DPP310072Q53GT458111SNUPN10073Snurportin 159111HUWE110075Upstream regulatory element binding protein 160110PTPRU10076Protein tyrosine phosphatase61111TSSC410078Tumor suppressing subtransferable candidate 462111CDH91007Cadherin 963111PDCD710081Q6IEG364111USH1C10083Q7RTU865111PQBP110084Polyglutamine binding protein 166110EDIL310085Q8N61067111COL4A3BP10087B3KUB768111CDH101008Cadherin 1069111ARPC510092Actin related protein 2/3 complex subunit 570111ARPC410093C9JJ5971111ARPC310094ARP2/3 protein complex subunit p2172111ARPC1B10095A4D27573111ACTR310096P6115874111ACTR210097ARP2 actin-related protein 2 homolog75110TSPAN310099A6NEH476111CDH111009Cadherin 1177110ADA100Adenosine deaminase78110TSPAN110103Tetraspan 179110PPIF10105Peptidylprolyl isomerase F80110CTDSP210106CTD carboxy-terminal domain81111ARPC210109Q53R1982111CDH121010Cadherin 1283111SGK210110Serum/glucocorticoid regulated kinase 284111RAD5010111RAD5085111KIF20A10112Kinesin family member 20A86110PREB10113Q9HCU587111HIPK310114Homeodomain interacting protein kinase 388110FEM1B10116FEM1 beta89110ACTR1B10120Actin related protein 1B90111ACTR1A10121Actin related protein 1A91110ARL4C10123Q53R1092110ARL4A10124ADP ribosylation factor like 4A93110RASGRP110125B2RA8994111DNAL410126O9601595111ZNF26310127Zinc finger protein...

...html; charset=us-ascii Probabilistic Local WalksProbabilistic Local WalksAn Accurate And Efficient Method For Detecting Protein Complexes from Protein-Protein Interaction NetworksDownload this project as a .zip file Download this project as a tar.gz fileWhat is PLW?PLW (Probabilistic Local Walks) is a graph clustering algorithm, and was designed to detect protein complexes in protein-protein interaction (PPI) networks with high accuracy and efficiency.PLW uses a seed selection strategy to prioritise...

...preg_match("/downloads.php/",$addr)) { echo " - Downloads"; } elseif(preg_match("/browse.php/",$addr)) { echo " - Browse Proteins"; } elseif(preg_match("/about.php/",$addr)) { echo " - About ENTS"; } ?> ENTSContact Us>Home>About>Browse>DownloadsHelpBatch Modebatch_mode_linkSpecify ProteinProtein: A Protein Name input_protein_name Cutoff: Min. Interaction confidence $i%"; } else { echo "$i%"; } } ?> select_cutoff Organism: Organism name MySQL error!"; } else $sql = "SELECT...

...html; charset=utf-8 iLoops ServeriLoops ServerSubmissionResultsHelpIntroduction (click to show/hide)The iLoops Server uses protein structural features (protein loops as classified in ArchDB and/or domains as classified in SCOP) to determine whether any pair of proteins interact or not. To do that, it uses data from both known protein interactions and putative non-interacting proteins (co-localized, non-redundant, non-interacting random protein pairs non-similar to PPIs), assigning positive and negative scores to the structural features.The...

...ServicesResearchTrainingIndustryAbout usPSICQUIC ViewExamples:BRCA2,Q06609,dmc1,10831611 Input FormBrowseHelpFeedbackInput Form > Browse 5,710,019 binary interactions found for search term *Service content: protein-proteinimportedspokeclusteredAPID InteractomesService content: protein-proteinimportedspokepredictedinternally-curatedBAR-104,854Service content: protein-proteinsmallmolecule-proteinnucleicacid-proteininternally-curatedimex curationmimix curationspokeevidencebhf-ucl-2,282Service content: protein-proteinsmallmolecule-proteinnucleicacid-proteinspokeclusteredBINDService content: smallmolecule-proteininternally-curatedevidencespokeexperimentally-observedBindingDBTimed outService content: protein-proteininternally-curatedrapid curationspokeevidenceBioGrid-1,371,394Service content: smallmolecule-proteininternally-curatedmimix curationspokeevidenceChEMBL-628,504Service content: protein...

...usOverviewMembersFacilitiesGT Login (CSSB staff)Skolnick Research GroupPublicationsNews & EventsNewsDistinguished Lecture SeriesUpcoming SeminarsPast SeminarsSoftware & ServicesServicesSoftwareDatabasesSimulationsJobs APoc Most proteins interact with small-molecule ligands such as metabolites or drug compounds. Over the past several decades, many of these interactions have been captured in high-resolution atomic structures. From a geometric point of view, most interaction sites for grasping these small-molecule ligands, as revealed in these structures, form concave shapes...

...Coiled coils (Pauling and Corey, 1953) are structural motifs found in a diverse array of proteins, from structural proteins such as collagen, keratin and myosin, which are the main components of...-382. Pauling, L. and Corey, R.B. (1953) Compound helical configurations of polypeptide chains: structure of proteins of the alpha-keratin type. Nature, 171, 59-61. Methodology The key properties that provide stability to a coiled coil are helical propensity, hydrophobicity of the core, and electrostatic interactions. The hydrophobic residues at positions a and d exist on the same face of the...

22943312 http://bioinfozen.uncc.edu/tfindit/ text/html; charset=utf-8 TFinDit: Transcription Factor-DNA Interaction Data DepositoroyPercentage of the aligned query length over the whole query sequencePercentage of the aligned subject sequence over the whole subject sequenceClick to View SuperpositionProtein Chain ID(s)DNA Chain ID(s)A TF-unit is defined as an entity that (a) the protein is a monomer or there are at least 3 residue-residue contacts (based on heavy...

...systems pharmacology, as well as to construct a co-authorship collaboration network. We predict direct protein-protein interactions from high-throughput mass-spectrometry proteomics; build networks that connect pluripotency regulators based on ChIP...synthetic network.Download the original synthetic network or the gene sets.Applications of the MethodProtein Protein Interactions The highest confidence inferred PPI interactions. White edges are confirmed interactions and dark edges are predictions. Edge weight corresponds to the probability of the prediction. Click on the image to view an interactive version of the network.Download the interactions.Drug and Side Effect Interactions Inferred interactions between side effects and drugs using data from the FDA's Adverse Reporting System...

...ServerThis is the web server BIPS (Biana Interolog Prediction Server). Here, you can predict putative interactions between proteins based on homologs found in Protein-Protein interaction databases. BIPS relies on data integrated in BIANA. You just need to insert your sequences of interest or list of protein identifiers, and BIPS will infer interactions based on homology. Predicted partners can be restricted to proteins added in your list or to the complete BIANA database. If you are unsure on...

...IDs work at present. More species will be added in the near future.Query a protein interaction network: proteomic ielm e.g. example 1; example 2GRB2_HUMAN SOS1_HUMANPlease choose database your...a domain family. For more information, please click hereThere is a limit of 75,000 interactions for a tabulated list or 400 IDs for all-against-all search.Only human IDs work at present. More species will be added in the near futureiELM1.0 predicts linear motif mediated interactions of ELM annotated functional classes. This form allows a user to search their protein of interest for short linear motif-mediated interactions within the high-quality protein-protein association...

...text/html; charset=us-ascii UsageOverview Biological processes are often performed by a group of proteins rather than by individual proteins, and proteins in a same biological group form a densely connected subgraph in a protein-protein interaction network. Therefore, finding a densely connected subgraph provides useful information to predict the function or protein complex of uncharacterized proteins in the highly connected subgraph. We have developed an efficient algorithm and program called ModuleSearch...

...text/html; charset=us-ascii Apoptosis database HomeResearchMembersCoursesGrants and AwardsJobs and OpeningsExtending signalling pathways with protein-interaction networks. Application to apoptosis.Extending signalling pathways with protein-interaction networks. Application to apoptosis. Joan Planas-Iglesias, Emre Guney, Javier Garcia-Garcia, Kevin A. Robertson...present the supplementary materials and complete numerical results for the paper "Extending signalling pathways with protein-interaction networks. Application to apoptosis.". In this work, we build four different apoptotsis-related networks from the 53 hand-curated apoptotsis-related proteins known by 20051 (referred as seeds). These seeds are connected in networks according to the...

...IP/MS-2-PPI-DDIHomeComplexesPPIDDINavigationAboutDownloads    Data and Tables    FiguresAboutCoregulator proteins (CoRegs) are part of multi-protein complexes that transiently assemble with transcription factors and chromatin...lines aimed at identifying CoRegs complexes. Using the semi-quantitative spectral counts, we scored binary protein-protein and domain-domain associations with several equations. Unlike previous applications, our methods scored prey-prey protein-protein interactions regardless of the baits used. We also predicted domain-domain interactions underlying predicted protein-protein interactions. The quality of predicted protein-protein and domain-domain interactions was evaluated using known binary interactions from the literature, whereas one protein-protein interaction, between...

22067443 http://omics.bjcancer.org/pina/ text/html; charset=us-ascii PINA2PINA: Protein Interaction Network Analysis platform FeedbackContactLogin (free registration)    Home IntroductionStatistics & DownloadTutorialFAQ    Network Construction...Filter Filter (Annotation)Filter (GO similarity)    Network Analysis Network functionNetwork topologyTopologically important proteinsCommon interacting proteins    User Community Shared networks Shared comments    User Space My networks My commentsNetwork OperationIntroductionProtein Interaction Network Analysis (PINA) platform is an integrated platform for protein interaction network construction, filtering, analysis, visualization and management. It integrates protein-protein interaction data from six public curated databases and builds a complete, non-redundant protein interaction dataset...

...Gee Kim, Insuk So, Ju-Hong Jeon, and Hyun Ho Park, "A comprehensive manually curated protein-protein interaction database for the Death Domain superfamily." Nucleic acids research 40, D1 (2012): D331-336.Death Domain database:A manually curated database of protein-protein interactions for Death Domain SuperfamilyThe Death domain (DD) superfamily is one of the largest classes of protein interaction modules and plays a pivotal role in the apoptosis, inflammation, necrosis, and immune cell signaling...

...cbrc.kaust.edu.sa/hcvpro/ text/html; charset=utf-8 Hepatitis C Virus Protein Interaction Database   Hepatitis C Virus Protein Interaction DatabaseHomeSearchManualFAQStatisticsLinksDownloadContactHOMEHepatitis virus proteinsStart exploring...HCVPROHepatitis C Virus Protein Interaction Database (HCVpro) is a comprehensive and integrated knowledgebase of Hepatitis C Virus (HCV) protein interactions. The increasing chronicity and global infection rates of HCV necessitate the need for...

...agreementBack to the TopThe networks are adapted from: A graphical view of the world of protein-protein interaction databases, by Tomas Klingström and Dariusz Plewczynski. ICM, Interdisciplinary Centre for Mathematical and Computational Modelling, University of Warsaw, Poland. The work was supported by Polish Ministry of Science and Higher Education N301 159735 grant.The networks are visualized with Cytoscape Web.BIND - Biomolecular Interaction Network Database. Protein-Protein Interactions. Genetic Interaction NetworksDetailsFreePSI-MIBRITE - Functional Hierarchies and Binary Relationships of Biological Entities. Protein...

...August 2013We now have information about ~550 resources!. Visual navigation added May 2010Click the 'Database interactions' link on the left menu to access. Major updateAll resources were recently reviewed and many new ones were added Get the StatsDetailed Pathguide resource statistics now available Pathguide PublishedPlease cite the Pathguide PublicationProtein-Protein Interactions  Database Name (Order: alphabetically | by web popularity alphabetically | by web popularity ) Full RecordAvailabilityStandards2P2Idb - The...

...Text:   Bulk SearchSequence Search  Accession NumberProtein NameNumber of Observed Peptidescathepsincathepsin1choline transporter-like protein 2choline transporter-like protein 22hexosaminidase-likehexosaminidase-like2hypothetical protein LOC321166hypothetical protein LOC3211661hypothetical protein LOC322814hypothetical protein LOC3228141hypothetical protein LOC324985hypothetical protein LOC3249852hypothetical...NumberProtein NameNumber of Observed Peptidescathepsincathepsin1choline transporter-like protein 2choline transporter-like protein 22hexosaminidase-likehexosaminidase-like2hypothetical protein LOC321166hypothetical protein LOC3211661hypothetical protein LOC322814hypothetical protein LOC3228141hypothetical protein LOC324985hypothetical protein LOC3249852hypothetical protein LOC336746hypothetical protein LOC3367461hypothetical protein LOC393175hypothetical...

...ascii About - OrthoNets - Wodak LabAbout - OrthoNets - Wodak LabThis Cytoscape plugin enables the simultaneous visualization of interaction networks in multiple organisms, using information aggregated in DAnCER and iRefWeb/iRefIndex. As PPI networks are complex in even simple organisms like yeast, a key feature is the ability to quickly focus in on a protein of interest, isolate its homologues in the other network, and hide all proteins that do not interact with the selected protein or its homologues. In Figure 1 (top...

21036873 http://www.megabionet.org/atpid/webfile/ text/html; charset=utf-8 AtPID AtPIDArabidopsis thaliana Protein Interactome DatabaseQUICK START:Please enter a single protein when you would like to know if some other protein can interact with it. Otherwise, enter a pair of protein to check if they can interact with each other according to our data collections and predictions. AtPID can identify a variety...

...sinica.edu.tw/TMPad/ text/html; charset=us-ascii TMPadHomeSearchPDB ID:GoHomeHighlightSearchSearch ResultsBrowseStatisticsDownloadHelpFAQsAbout UsTMPadThe TransMembrane Protein Helix-Packing Database (TMPad) is an integrated repository of experimentally determined structural folds derived from helix-helix interactions in alpha-helical membrane proteins. TMPad includes geometric descriptors of helix-helix interactions, topology, lipid accessibility, ligand and binding sites information.In addition, TMPad provides structural classification and...