Tag: protein family

MetaCyc is the largest curated collection of metabolic pathways currently available. It provides a comprehensive resource for metabolic pathways and enzymes from all domains of life. The pathways in MetaCyc are experimentally determined, small-molecu ...

ConoServer is a database specializing in sequences and structures of peptides expressed by marine cone snails. The database gives access to protein sequences, nucleic acid sequences and structural information on conopeptides. ConoServer's data are fi ...

The LIPID MAPS Lipid Classification System is comprised of eight lipid categories, each with its own subclassification hierarchy. All lipids in the LIPID MAPS Structure Database (LMSD) have been classified using this system and have been assigned LIP ...

The GPCRDB is a molecular-class information system that collects, combines, validates and stores large amounts of heterogenous data on G protein-coupled receptors (GPCRs). The GPCRDB contains data on sequences, ligand binding constants and mutations. ...

The Stanford HIV Drug Resistance Database (HIVDB) is an essential resource for public health officials monitoring ADR and TDR, for scientists developing new ARV drugs, and for HIV care providers managing patients with HIVDR.

A collection of information about restriction enzymes and related proteins. It contains published and unpublished references, recognition and cleavage sites, isoschizomers, commercial availability, methylation sensitivity, crystal, genome, and sequen ...

The Termini-Oriented Protein Function INferred Database (TopFIND) is an integrated knowledgebase focused on protein termini, their formation by proteases and functional implications. It contains information about the processing and the processing sta ...

Kinase-Ligand Interaction Fingerprints and Structures database (KLIFS) is a database that revolves around the protein structure of catalytic kinase domains and the way kinase inhibitors can interact with them. Based on the underlying systematic and c ...

MoonProt Database is a manually curated, searchable, internet-based resource with information about the over 200 proteins that have been experimentally verified to be moonlighting proteins. Moonlighting proteins comprise a class of multifunctional pr ...

The Bacterial protein tYrosine Kinase database (BYKdb) contains computer-annotated BY-kinase sequences. The database web interface allows static and dynamic queries and provides integrated analysis tools including sequence annotation.

ARAMEMNON is a curated database for Arabidopsis thaliana transmembrane (TM) proteins and transporters. The database compiles topology and signal sequence predictions and displays the results in a directly comparable graphical output format for presen ...

DEPOD - the human DEPhOsphorylation Database is a manually curated database collecting human active and inactive phosphatases, their experimentally verified protein and non-protein substrates, and dephosphorylation site information, and pathways in w ...

BACTIBASE contains calculated or predicted physicochemical properties of bacteriocins produced by both Gram-positive and Gram-negative bacteria. The information in this database is very easy to extract and allows rapid prediction of relationships str ...

This is a database of comparative protein structure models of the MIP (Major Intrinsic Protein) family of proteins. The MIPs have been identified from the completed genome sequence of organisms available at NCBI.

HIstome (Human histone database) is a freely available, specialist, electronic database dedicated to display information about human histone variants, sites of their post-translational modifications and about various histone modifying enzymes.

Norine is a platform that includes a database of nonribosomal peptides together with tools for their analysis. Norine currently contains more than 1000 peptides.

The Telomerase Database is a Web-based tool for the study of structure, function, and evolution of the telomerase ribonucleoprotein. The objective of this database is to serve the research community by providing a comprehensive compilation of informa ...

Peroxibase provides access to peroxidase sequences from all kingdoms of life, and provides a series of bioinformatics tools and facilities suitable for analysing these sequences.

Families of nuclear hormone receptors

Cytochrome P450 alleles and drug interactions

Experimentally-determined binding sites of RNA-binding proteins

Chaperonins are a diverse family of molecular chaperones present in the plastids, mitochondria, and cytoplasm of eukaryotes, and in bacteria and archaea. The family is divided into group I (CPN60, also known as Hsp60 or GroEL, found in bacteria, some ...

KnotProt collects information about proteins with knots or slipknots. The knotting complexity of proteins is presented in the form of a matrix diagram that shows users the knot type of the entire polypeptide chain and of each of its subchains. The da ...

ADPriboDB is a database of ADP-ribosylated proteins and their literature-identified ADP-ribosylated residues. The database includes a variety of information for each entry, including any drug treatments performed to obtain the identification of the m ...

The KNOTTIN database provides standardized data on the knottin structural family (also referred to as the "Inhibitor Cystine Knot (ICK) motif/family/fold").

Polbase is an open and searchable database providing information from published and unpublished sources on the biochemical, genetic, and structural information of DNA polymerases.

PeroxiRedoxin classification indEX

ORDB began as a database of vertebrate OR genes and proteins and continues to support sequencing and analysis of these receptors by providing a comprehensive archive with search tools for this expanding family.

Death Domain Database is a manually curated database of protein-protein interactions for Death Domain Superfamily.

Plant protease inhibitors (PIs) can be counted among the defensive proteins that plants display to minimize the adverse effects deriving from the attack of phytophagous insects. They are usually present in seeds and storage tissues, but are also expr ...

Beta-barrel outer membrane proteins from Gram-negative bacteria

GpDB is a publicly accessible, relational database of G-proteins and their interactions with GPCRs and effector molecules. The sequences are classified according to a hierarchy of different classes, families and sub-families, based on extensive liter ...

Thioester-active enzymes

ProRepeat is an integrated curated repository and analysis platform for in-depth research on the biological characteristics of amino acid tandem repeats. ProRepeat collects repeats from all proteins included in the UniProt knowledgebase, together wit ...

Protein-protein interactions for mammalian TRP channels

Experimentally characterized Prokaryotic GlycoProteins

Voltage-gated potassium channel database

The Lipase Engineering Database (http://www.led.uni-stuttgart.de) integrates information on sequence, structure, and function of lipases, esterases, and related proteins. Sequence data on 806 protein entries are assigned to 38 homologous families, wh ...

Three-dimensional (3D) chromatin structure is an emerging paradigm for understanding gene regulation mechanisms. Hi-C (high-throughput chromatin conformation capture), a method to detect long-range chromatin interactions, allows extensive genome-wide ...

FCP is a publicly accessible web tool dedicated to analysing the current state and trends on the population of available structures along the classification schemes of enzymes and nuclear receptors, offering both graphical and quantitative data on th ...

Laminins (LM) correspond to a large number of heretotrimeric glycoproteins, playing and a major role in several cell functions, including differentiation, proliferation, adhesion, and migration [1-3]. In addition to binding to other extracellular mat ...

Sequences and motifs of the phycobilin lyase protein family

Expert-authored and peer-reviewed information on mammalian proteins involved in cellular signaling

The Protein Kinase Resource (PKR) is a curated information source which provides an integrated view of sequence and structure data combined with biochemical and genetic function data focused on a single family of proteins, the protein kinases. In add ...

Kinase-inhibitor-disease family map

Heme types, protein structures, axial ligands and Em values

Ribosomal protein gene database

Wnt proteins form a family of highly conserved secreted signaling molecules that regulate cell-to-cell interactions during embryogenesis. Wnt genes and Wnt signaling are also implicated in cancer. Insights into the mechanisms of Wnt action have emerg ...

Classification of protein kinases encoded in various eukatotic species

Families of protein-coding genes from five sequenced plant species

The defensins knowledgebase is a manually curated database and information source devoted to the defensin family of antimicrobial peptides. The current version of the database holds a comprehensive collection of over 350 defensin records each contain ...

WD40 domain structure predictions

Database Of BIoSynthesis clusters CUrated and InTegrated

A database of selenoprotein genes, proteins and SECIS elements

Disease-Annotated Chromatin Epigenetics Resource

Chromatin-associated proteins in a broad range of organisms

The ubiquitin and ubiquitin-like (Ub/Ubl) conjugation is one of the most important post- translational modifications (PTMs) in proteins, and regulates a large number of cellular processes, such as cell cycle, signal transduction, apoptosis and auto ...

Ubiquitin and ubiquitin-like conjugation database

Pyridoxal-5'-phosphate dependent enzymes mutations

RNase P sequences, alignments, and structures

Clusters of predicted plant proteins

The GPCR NaVa database describes sequence variants within the family of human G Protein-Coupled Receptors (GPCRs). GPCRs regulate many physiological functions and are the targets for most of today's medicines. The acronym NaVa stands for Natural Vari ...

Clusters of conformations of antibody CDRs

Zinc Finger DataBase

Writers, Erasers and Readers of Histone Acetylation and Methylation

Lipid raft associated proteins in mammals

Sequences and classification of predicted membrane transporters encoded in complete genomes

Database of animal toxins

CyMoBase is an online database for manually annotated protein sequences of cytoskeletal and motor proteins and associated information. It currently offers more than 3000 sequences from 26 proteins in more than 350 species. Meta information linked to ...

Proteases, protease inhibitors and protease mutations in human, chimpanzee, mouse, and rat

Engineered endonucleases: zinc finger nucleases and transcription activator-like effector nucleases

Ontology-based Knowledgebase for Cell Adhesion Molecules

SENTRA (http://www.ncbi.nlm.nih.gov/Complete_Genomes/SignalCensus.html) is a database of proteins associated with microbial signal transduction. The database currently includes the classical two-component signal transduction pathway proteins and meth ...

NURSA is a resource within which bioinformatic and bench research efforts in the field of nuclear receptors can be pursued in a synergistic and multidisciplinary approach, using a common technological platform. The primary directive of the NURSA prog ...

SDAP (Structural Database of Allergenic Proteins) is a Web server that provides rapid, cross-referenced assess to the sequences, structures, and IgE epitopes of allergenic proteins. The SDAP core is a series of CGI scripts that process the user queri ...

CSDBase (http://www.chemie.uni-marburg.de/~csdbase/) is an interactive Internet-embedded research platform providing detailed information on cold shock domain-containing proteins and bacterial cold shock responses. In its second release, access to CS ...

Due to their involvement in several diseases like cancer, inflammation, fever or arthritis, a lot of research is done on lipoxygenases yielding information about sequence, structure and function of these proteins. The LipOXygenases-DataBase (LOX-DB) ...

CREMOFAC is a dedicated web-database for ATP and Non-ATP dependent chromatin-remodeling factors. The database harbors factors from 49 different organisms reported in literature and facilitates a comprehensive search for them. It provides in-depth inf ...

Seven-transmembrane-helix receptors (7-TMR), known as G-protein-coupled receptors [1], are important genes that work as the gateway of signal transudation induced by ligand binding. Recent progress in determination of human draft sequences [2,3] acce ...

The Peptaibol Database is a sequence and structure resource for the unusual class of peptides known as peptaibols. The database includes sequence, biological source, and bibliographical data for the naturally-occurring peptaibols. Information is also ...

Dehydrogenase enzymes belong to the oxidoreductase class and utilise the coenzymes NAD and NADP. Stereo-selectivity is focused on the C4 hydrogen atoms of the nicotinamide ring of NAD(P). Depending upon which hydrogen is transferred at the C4 locatio ...

Natural oligopeptides may regulate nearly all vital processes. To date, the chemical structures of nearly 6000 oligopeptides have been identified from more than 1000 organisms representing all the biological kingdoms. We have compiled the known physi ...

RNRdb - the Ribonucleotide Reductase Database - is a tool developed for ribonucleotide reductase (RNR) research. RNR is an enzyme that uses radical chemistry to reduce ribonucleotides to deoxyribonucleotides. Since this is the only pathway for the de ...

As one database with two functionally different web interfaces, PlantsP and PlantsT are plant-specific curated databases that combine sequence derived information with experimental functional genomics data. PlantsP focuses on proteins involved in the ...

Signal recognition particle (SRP) is an ribonucleoprotein particle designed to recognize secretory signal sequences as they emerge from the ribosome. SRP associates with the SRP-receptor in the ER membrane, is released from the ribosome, and recycled ...