Tag: small molecule


Found 206 sources
Source Match ReputationScore*

Gene Ontology


The Gene Ontology resource provides a computational representation of our current scientific knowledge about the functions of genes (or, more properly, the protein and non-coding RNA molecules produced by genes) from many different organisms, from hu ...
100%

Chemical Entities of Biological Interest


Chemical Entities of Biological Interest (ChEBI) is a free dictionary that describes 'small’ chemical compounds. These compound includes distinct synthetic or natural atoms, molecules, ions, ion pair, radicals, radical ions, complexes, conformers, et ...
65%

IUPHAR/BPS Guide to PHARMACOLOGY


The information in the database is presented at two levels: the initial view or landing pages for each target family provide expert-curated overviews of the key properties and selective ligands and tool compounds available. For selected targets more ...
63%

ChEMBL


ChEMBL is a manually curated database of bioactive molecules with drug-like properties. It brings together chemical, bioactivity and genomic data to aid the translation of genomic information into effective new drugs.
62%

PubChem


PubChem is organized as three linked databases within the NCBI's Entrez information retrieval system. These are PubChem Substance, PubChem Compound, and PubChem BioAssay. PubChem also provides a fast chemical structure similarity search tool. More in ...
61%

The Cambridge Structural Database


Established in 1965, the CSD is the world’s repository for small-molecule organic and metal-organic crystal structures. Containing over 800,000 entries from x-ray and neutron diffraction analyses, this unique database of accurate 3D structures has be ...
57%

The Human Metabolome Database


The Human Metabolome Database (HMDB) is a database containing detailed information about small molecule metabolites found in the human body.It contains or links 1) chemical 2) clinical and 3) molecular biology/biochemistry data.
54%

DrugBank


The DrugBank database is a unique bioinformatics and cheminformatics resource that combines detailed drug data with comprehensive drug target information.
54%

WormBase


WormBase is an international consortium of biologists and computer scientists dedicated to providing the research community with accurate, current, accessible information concerning the genetics, genomics and biology of C. elegans and related nematod ...
48%

MEROPS


The MEROPS database is an information resource for peptidases (also termed proteases, proteinases and proteolytic enzymes) and the proteins that inhibit them.
47%

PeptideAtlas


The PeptideAtlas Project provides a publicly accessible database of peptides identified in tandem mass spectrometry proteomics studies and software tools.
46%

PhosphoSite Plus


PhosphoSite Plus provides extensive information on mammalian post-translational modifications (PTMs). The resource supersedes PhosphoSite a mammalian protein database that provides information about in vivo phosphorylation sites.
45%

MetaCyc


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 ...
44%

ConoServer


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 ...
43%

TarBase


DIANA-TarBase was initially released in 2006 and it was the first database aiming to catalogue published experimentally validated miRNA:gene interactions. DIANA-TarBase (v7.0), provides hundreds of thousands of high quality manually curated experimen ...
42%

Search Tool for Interactions of Chemicals


STITCH is a resource to explore known and predicted interactions of chemicals and proteins. Chemicals are linked to other chemicals and proteins by evidence derived from experiments, databases and the literature.
42%

BiGG Models


BiGG is a freely compendium of published genome-scale metabolic networks, combined into a single database. NCBI genome annotations are used to map genes, and metabolites are linked to many external databases such as KEGG, PubChem as well as others..
41%

Information system for G protein-coupled receptors (GPCRs)


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. ...
41%

Rhea


Rhea is a comprehensive and non-redundant resource of expert-curated chemical and transport reactions of biological interest. Rhea can be used for enzyme annotation, genome-scale metabolic modeling and omics-related analysis. Rhea describes enzyme-ca ...
40%

Small Molecule Pathway Database


The Small Molecule Pathway Database (SMPDB) contains small molecule pathways found in humans, which are presented visually. All SMPDB pathways include information on the relevant organs, subcellular compartments, protein cofactors, protein locations, ...
40%

ImMunoGeneTics Information System


IMGT is a high-quality integrated knowledge resource specialized in the immunoglobulins (IG) or antibodies, T cell receptors (TR), major histocompatibility complex (MHC) of human and other vertebrate species, and in the immunoglobulin superfamily (Ig ...
40%

Restriction enzymes and methylases database


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 ...
39%

TDR Targets


Identification and ranking of targets and bioactive compounds against neglected tropical diseases. TDR Targets integrates chemical and genomic information and allows users to prioritize targets and compounds to develop and repurpose new drugs and che ...
39%

TTD, Therapeutic Target Database


The Therapeutic Target Database provides information about therapeutic protein and nucleic acid targets, the targeted disease, pathway information and the corresponding drugs directed at each of these targets. Also included in this database are links ...
39%

SuperTarget


Drug-related information: medical indications, adverse drug effects, drug metabolism and Gene Ontology terms of the target proteins.
38%

BindingDB database of measured binding affinities


BindingDB enables research by making a growing collection of high-quality, quantitative, protein-ligand binding data findable and usable. Funded by NIGMS/NIH.
38%

Database of MHC Ligands and Peptide Motifs


SYFPEITHI is a database comprising more than 7000 peptide sequences known to bind class I and class II MHC molecules.
38%

Yeast Searching for Transcriptional Regulators and Consensus Tracking


YEASTRACT (Yeast Search for Transcriptional Regulators And Consensus Tracking) is a curated repository of more than 48333 regulatory associations between transcription factors (TF) and target genes in Saccharomyces cerevisiae, based on more than 1200 ...
38%

CAPS-DB : a structural classification of helix-capping motifs


CAPS-DB is a structural classification of helix-cappings or caps compiled from protein structures. Caps extracted from protein structures have been structurally classified based on geometry and conformation and organized in a tree-like hierarchical c ...
38%

MatrixDB: Extracellular Matrix Interaction Database


MatrixDB stores experimental data established by full-length proteins, matricryptins, glycosaminoglycans, lipids and cations. MatrixDB reports interactions with individual polypeptide chains or with multimers (e.g. collagens, laminins, thrombospondin ...
37%

Database of Bacterial Exotoxins for Human


DBETH is the Database of Bacterial Exotoxins for Human. The aim of this database is to assemble information on the toxins responsible for causing bacterial pathogenesis in humans.
37%

Orphanet


Orphanet is gathering knowledge on orphaned drugs and rare diseases (with genes involved). Data available via http://www.orphadata.org/
37%

BioSystems


The NCBI BioSystems database centralizes and cross-links existing biological systems databases, increasing their utility and target audience by integrating their pathways and systems into NCBI resources. The resource provides categorical information ...
37%

Crystallography Open Database


The Crystallography Open Database (COD) is a project that aims to gather all available inorganic, metal-organic and small organic molecule structural data in one database.
36%

Sol Genomics Network


The Sol Genomics Network (SGN) is a database and website dedicated to the genomic information of the Solanaceae family, which includes species such as tomato, potato, pepper, petunia and eggplant.
36%

Molecular Modeling Database (MMDB)


The Molecular Modeling Database (MMDB), as part of the Entrez system, facilitates access to structure data by connecting them with associated literature, protein and nucleic acid sequences, chemicals, biomolecular interactions, and more.
36%

Open Provenance Model


The Open Provenance Model (OPM) is a model of provenance that is designed to meet the following requirements: (1) To allow provenance information to be exchanged between systems, by means of a compatibility layer based on a shared provenance model. ( ...
36%

Minimum Information about a Biosynthetic Gene cluster


A wide variety of enzymatic pathways that produce specialized metabolites in bacteria, fungi and plants are known to be encoded in biosynthetic gene clusters. Information about these clusters, pathways and metabolites is currently dispersed throughou ...
36%

ArachnoServer: Spider toxin database


ArachnoServer is a manually curated database containing information on the sequence, three-dimensional structure, and biological activity of protein toxins derived from spider venom.
36%

Open Regulatory Annotation


The Open REGulatory ANNOtation database (ORegAnno) is an open database for the curation of known regulatory elements from scientific literature. Annotation is collected from users worldwide for various biological assays and is automatically cross-ref ...
36%

IMGT/3Dstructure-DB


IMGT/3Dstructure-DB (1,2) is the three-dimensional (3D) structure database of IMGT®, the international ImMunoGenetics information system® (3,4) that is acknowledged as the global reference in immunogenetics and immunoinformatics. IMGT ...
35%

3D interacting domains


The database of 3D Interaction Domains (3did) is a collection of domain-domain interactions in proteins for which high-resolution three-dimensional structures are known. 3did exploits structural information to provide critical molecular details neces ...
35%

Collection of Anti Microbial Petides R3


CAMPR3 (Collection of Anti-Microbial Peptides) has been generated to enhance research into AMP families. The collection is compatible with well-known databases such as PubMed and Uniprot with information like sequence, protein definition, accession n ...
35%

Polymorphism in microRNAs and their TargetSites


PolymiRTS (Polymorphism in microRNAs and their TargetSites) is a database of naturally occurring DNA variations in microRNA (miRNA) seed regions and miRNA target sites. MicroRNAs pair to the transcripts of protein-coding genes and cause translational ...
35%

StarBASE


microRNA-mRNA interaction maps
35%

canSAR


canSAR is an integrated cancer research and drug discovery resource that brings together large-scale data from different disciplines and allows query and exploration to help cancer research and drug discovery.
34%

The UC Irvine ChemDB


ChemDB is a chemical database containing nearly 5M commercially available small molecules, important for use as synthetic building blocks, probes in systems biology and as leads for the discovery of drugs and other useful compounds.
34%

Minimum Information About a Bioactive Entity


MIABE is intended to be used as a guideline which should be consulted prior to the publication of data describing small molecules and their interactions with one or more target molecules. It was developed by representatives of pharmaceutical companie ...
34%

BioNumbers


Useful biological numbers
34%

Library of Integrated Network-Based Cellular Signatures Data Portal


The LINCS Data Portal provides a unified interface for searching LINCS dataset packages and reagents. LINCS data are being made openly available as a community resource through a series of data releases, so as to enable scientists to address a broad ...
33%

Bimas HLA Peptide Binding Predictions


Function: Rank potential 8-mer, 9-mer, or 10-mer peptides based on a predicted half-time of dissociation to HLA class I molecules. The analysis is based on coefficient tables deduced from the published literature.
33%

PhosPhAt


Arabidopsis Protein Phosphorylation Site Database
33%

GlycomeDB


GlycomeDB is the result of a systematic data integration effort, and provides an overview of all carbohydrate structures available in public databases, as well as cross-links.
33%

Toxin and Toxin Target Database


Toxin and Toxin Target Database (T3DB) is a bioinformatics resource that combines detailed toxin data with comprehensive toxin target information.
33%

ValidatorDB


ValidatorDB is a collection of validation results for the entire Protein Data Bank. Annotation (3-letter code) of HET residues larger than 6 heavy atoms is inspected, i.e. if the residue has the same topology and stereochemistry as the model ligand o ...
33%

The human DEPhOsphorylation Database


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 ...
33%

RESID Database of Protein Modifications


The RESID Database of Protein Modifications is a comprehensive collection of annotations and structures for protein modifications including amino-terminal, carboxyl-terminal and peptide chain cross-link post-translational modifications.
32%

short Open Reading Frame database


sORFs.org is a database for sORFs identified using ribosome profiling. Starting from ribosome profiling, sORFs.org identifies sORFs, incorporates state-of-the-art tools and metrics and stores results in a public database. Two query interfaces are pro ...
32%

Mimotope Database


Mimotope database, active site-mimicking peptides selected from phage-display libraries. It is a database which stores information on peptides that have been selected from random peptide libraries based on their ability to bind small compounds, nucle ...
32%

LINCS Extended Metadata Standard: Small molecules


LINCS Production Phase 2 Extended Metadata Standards were developed by the LINCS consortium with the goal of generating an integrated view across the diverse LINCS data resources. These guidelines are focused on the minimum required information to mo ...
32%

Pocketome: an encyclopedia of small-molecule binding sites in 4D


The Pocketome is an encyclopedia of conformational ensembles of druggable binding sites that can be identified experimentally from co-crystal structures in the Protein Data Bank. Each Pocketome entry describes a site on a protein surface that is invo ...
31%

FunTree: A Resource For Exploring The Functional Evolution Of Structurally Defined Enzyme Superfamilies


A resource for exploring the evolution of protein function through relationships in sequence, structure, phylogeny and function.
31%

Protein-Chemical Structural Interactions


Protein-Chemical Structural Interactions provides information on the 3-dimensional chemical structures of protein interactions with low molecular weight.
31%

TADB


Type II Toxin-Antitoxin loci in bacteria and archaea
31%

Tomato Functional Genomics Database


The Tomato Functional Genomics Database integrates several prior databases including the Tomato Expression Database and Tomato Metabolite Database, and the Tomato Small RNA Database.
31%

NRG-CING


Validated NMR structures of proteins and nucleic acids.
31%

Protein-ligand affinity change upon mutation


Platinum is a manually curated, literature-derived database comprising over 1,000 mutations which for the first time associates experimental information on changes in protein-ligand affinity with the three-dimensional structures of the complex.
31%

The Drug Ontology


An ontology of drug products and packaged drug products.
30%

Telomerase Database


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 ...
30%

Herb Ingredient Targets


Herbal active Ingredients and their Targets
30%

miRDB


miRNA target prediction and functional annotation
30%

ChannelsDB


ChannelsDB is a comprehensive and regularly updated resource of channels, pores and tunnels found in biomacromolecules deposited in the Protein Data Bank.
30%

Dragon Antimicrobial Peptide Database


Dragon Antimicrobial Peptide Database is a manually curated database of known and putative antimicrobial peptides (AMPs). It covers both prokaryotes and eukaryotes organisms.
30%

SuperCYP


Cytochrome P450 alleles and drug interactions
30%

PathBank


PathBank is an interactive, visual database containing more than 100 000 machine-readable pathways found in model organisms such as humans, mice, E. coli, yeast, and Arabidopsis thaliana. The majority of these pathways are not found in any other path ...
30%

SCRIPDB: A Portal for Easy Access to Syntheses, Chemicals, and Reactions In Patents


SCRIPDB is a chemical structure database designed to make patent metadata accessible. We index public-domain chemical information contained in U.S. patents, and provide the full patent text, reactions, and relationships described within any individua ...
30%

Enzyme Portal


The Enzyme Portal is for those interested in the biology of enzymes and proteins with enzymatic activity. It integrates publicly available information about enzymes, such as small-molecule chemistry, biochemical pathways and drug compounds. It contai ...
30%

cpnDB


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 ...
29%

SuperDRUG2 - A One Stop Resource for Approved/Marketed Drugs


SuperDRUG2, an update of the previous SuperDrug database, is a unique, one-stop resource for approved/marketed drugs, containing more than 4,600 active pharmaceutical ingredients. Drugs are annotated with regulatory details, chemical structures (2D a ...
29%

PROMISCUOUS


Protein-protein and drug-protein interactions for studies of drug repositioning
29%

The Database of Human DNA Methylation and Cancer


The database of human DNA Methylation and Cancer (MethyCancer) is developed to study interplay of DNA methylation, gene expression and cancer. It hosts both highly integrated data of DNA methylation, cancer-related gene, mutation and cancer informati ...
29%

Bitter Compounds Database


BitterDB is a free and searchable database of bitter compounds. Compounds can be searched by name, chemical structure, similarity to other bitter compounds, association with a particular human bitter taste receptor, and so on. The database also conta ...
29%

PROFEAT


Tool for computing commonly-used structural and physicochemical features of proteins and peptides from amino acid sequence. New functions include computation of protein-protein and protein-small molecule interactions, topological descriptors for pept ...
29%

Knottin database


The KNOTTIN database provides standardized data on the knottin structural family (also referred to as the "Inhibitor Cystine Knot (ICK) motif/family/fold").
29%

SwissLipids


SwissLipids is an expert-curated resource that provides a framework for the integration of lipid and lipidomic data with biological knowledge and models. SwissLipids is updated daily.
29%

SitEx database of eukaryotic protein functional sites


SitEx is a database containing information on eukaryotic protein functional sites. It stores the amino acid sequence positions in the functional site, in relation to the exon structure of encoding gene This can be used to detect the exons involved in ...
29%

Effective


Predicted secreted bacterial proteins
29%

IBIS


Inferred Biomolecular Interaction Server: protein-protein, ligand- and nucleic acid-binding sites
29%

VIRsiRNAdb


VIRsiRNAdb contains information on experimentally validated Viral siRNA/shRNA which target viral genome regions. It provides efficacy information where available, as well as the siRNA sequence, viral target and subtype, as well as the target genomic ...
29%

Microbial Protein Interaction Database


The microbial protein interaction database (MPIDB) provides physical microbial interaction data. The interactions are manually curated from the literature or imported from other databases, and are linked to supporting experimental evidence, as well a ...
29%

PRIDB


Protein-RNA Interface Database
28%

Allosteric Database


Allostery is the most direct and efficient way for regulation of biological macromolecule function induced by the binding of a ligand at an allosteric site topographically distinct from the orthosteric site. Due to the inherent high receptor selectiv ...
28%

PepX


A non-redundant database of protein-peptide complexes
28%

AVPdb


Antiviral peptides (AVPs) have exhibited huge potential in inhibiting viruses by targeting various stages of their life cycle. Therefore, we have developed AVPdb, available online at http://crdd.osdd.net/servers/avpdb, to provide a dedicated resource ...
28%

MACiE


Enzymes are nature's catalysts, essential for the chemistry of life. Industrially relevant applications range from food science to laundry. We have now released MACiE, an electronic database of well-characterised enzymatic reactions. MACiE is the res ...
28%

proBed


The Proteomics Informatics Working Group is developing standards for describing the results of identification and quantification processes for proteins, peptides, small molecules and protein modifications from mass spectrometry. This working group is ...
28%

CancerResource


Cancer-relevant proteins and compound interactions
28%

WALTZ-DB 2.0


WALTZ-DB 2.0 is a database for characterizing short peptides for their amyloid fiber-forming capacities. The majority of the data comes from electron microscopy, FTIR and Thioflavin-T experiments done by the Switch lab. Apart from that class of data ...
28%

Hemolytik


A Database of Hemolytic and Non-hemolytic Peptides
28%

Indel Flanking Region Database


Indel Flanking Region Database is an online resource for indels (insertion/deletions) and the flanking regions of proteins in SCOP superfamilies. It aims at providing a comprehensive dataset for analyzing the qualities of amino acid indels, substitut ...
28%

nmrshiftdb2


nmrshiftdb2 is an NMR database for organic structures and their nuclear magnetic resonance (NMR) spectra. It allows for spectrum prediction (13C, 1H and other nuclei) as well as for searching spectra, structures and other properties. It also features ...
28%

snOPY


Small nucleolar RNA orthological gene database.
28%

Ligand Expo


Ligand Expo is a data resource for finding information about small molecules bound to proteins and nucleic acids. Tools are provided to search the PDB dictionary for chemical components, to identify structure entries containing particular small molec ...
28%

Prokaryotic Glycoproteins Database


ProGlycProt (Prokaryotic Glycoproteins) is a manually curated, comprehensive repository of experimentally characterized eubacterial and archaeal glycoproteins, generated from an exhaustive literature search. This is the focused beginning of an effort ...
27%

gpDB


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 ...
27%

Ebola and Hemorrhagic Fever Virus Database


The Ebola and Hemorrhagic Fever Virus Database stems from the Hemorrhagic Fever Viruses (HFV) Database Project founded by Dr. Carla Kuiken in 2009 at the Los Alamos National Laboratory (LANL). The HFV Database was modeled on the Los Alamos HIV Databa ...
27%

Brix


Protein building blocks for structural analysis, modeling and design
27%

RepTar


Predicted targets of host and viral miRNAs
27%

ThYme


Thioester-active enzymes
27%

SuperSweet


Natural and artificial sweetening agents
27%

ProRepeat: An Integrated Repository for Studying Amino Acid Tandem Repeats in Proteins


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 ...
27%

MMMDB


Mouse Multiple Tissue Metabolomics Database
27%

ADPriboDB


ADP-ribosylated proteins and sites
27%

Drug2Gene


Drug2Gene is a free multi-species drug-target knowledge base. It contains integrated and unified data of publicly available relations between drugs/compounds and their gene/protein targets gathered from 20 publicly available bio- and chemoinformatics ...
26%

mESAdb


microRNA Expression and Sequence Analysis Database
26%

BioDrugScreen


A resource for computational drug design and discovery
26%

miRPathDB


Dictionary on miRNAs and their putative target pathways
26%

MeMotif


Linear motifs in alpha-helical transmembrane proteins
26%

FusariumDB


Comparative genomics of Fusarium strains
26%

Natural Products Atlas


An Open Access Knowledge Base for Microbial Natural Products Discovery. The Natural Products Atlas Network views of chemical space. The Natural Products Atlas provides a unique tools for exploring natural products chemical space, offering perspecti ...
26%

DOMMINO


Database of MacroMolecular INteractions
26%

DRAMP


updated data repository of antimicrobial peptides | Browse, Create and Mining Antimicrobial Peptides | 157 new entries are added to in DRAMP. 33 entries are natural AMPs including 31 animal AMPs and 2 plant AMPs. 124 entries are synthetic AMPs | A br ...
26%

FragmentStore


Comprehensive database of fragments linking metabolites, toxic molecules and drugs
25%

Plant Reactome


Plant metabolic, regulatory and signaling pathways
25%

The Signaling Gateway


The Signaling Gateway provides information on mammalian proteins involved in cellular signaling.
25%

Pathema


It is a site for understanding, detecting, diagnosing and treating an established set of six target NIAID Category A-C pathogens. Each target pathogen is represented in one of four distinct clade-specific Pathema web resources and underlying database ...
25%

TuberQ


Mycobacterium tuberculosis protein druggability database
25%

DrugCombDB


DrugCombDB is a comprehensive database dedicated to integrating drug combinations from various data sources, include 1) high-throughput screening assays of drug combinations, 2) external databases, and 3) manual curations from PubMed literature.
25%

SPRITE


SPRITE is a protein structural motif database searching program. Users can upload a PDB file of a query protein structure, and SPRITE compares the input coordinates to a database of 3D side chain arrangements of sites and motifs using a graph theoret ...
25%

IDSM


IDSM is an integrated database of small molecules.
24%

STING


The Blue Star STING database stores information on the interactions between proteins and other bio macromolecules. Structure descriptors used in the analysis of these interactions are stored in STING DB to aid research primarily into the problems cha ...
24%

EDULISS


Database stores structural, physicochemical and pharmacophoric properties of small molecules. For each compound a single 3D conformer is stored along with over 1600 calculated descriptor values (molecular properties). A very efficient method for uniq ...
24%

MatrisomeDB


The ECM-protein knowledge database. Please follow MatrisomeDB. MatrisomeDB will be hosted at matrisomedb.org very soon.
24%

Signal Transduction Classification Database


The signal molecules and pathways are classified and illustrated by graphs in this database.
24%

R-BIND


An Interactive Database for Exploring and Developing RNA-Targeted Chemical Probes. R-BIND: The RNA-Targeted BIoactive ligaNd Database. The dataset includes only bioactive ligands with demonstrated activity in cell culture and/or animal models. This ...
24%

DNAproDB


An expanded database and web-based tool for structural analysis of DNA-protein complexes. A Database and Web Tool for Structural Analysis of DNA-Protein Complexes. DNAproDB automatically lays out nucleotide and residue interactions maps elegantly. ...
24%

DrugR+


Database for drug repurposing, combination therapy, and replacement therapy.
24%

N-GlycositeAtlas


A database resource for mass spectrometry-based human N-linked glycoprotein and glycosylation site mapping | Not a member? Reigist in www.biomarkercenter.org/nglycositeatlas | Database UniProtKB AC/ID Gene Protein Site Peptide Motif Source Year Refer ...
24%

Drug Targets


A database protal for drug target predictions based knowledge graph embeddings.
24%

MR-Base


Using the MR-Base platform to investigate risk factors and drug targets for thousands of phenotypes | This repository contains the case studies associated with the manuscript "Using the MR-Base platform to investigate risk factors and drug targets fo ...
24%

PlantMetabolomics


An NSF-funded multi-institutional project developing metabolomics as a functional genomics tool for elucidating the functions of Arabidopsis genes.
24%

VnD


Consolidated database containing information on diseases, related genes and genetic variations, protein structures and drug information. The database is a useful platform for researchers studying the underlying mechanism for association among genetic ...
24%

Structural Genomics of Histone Tail Recognition


The structural genomics of histone tail recognition web server is an open access resource that presents within mini articles all publicly available experimental structures of histone tails in complex with human proteins. Each article is composed of i ...
24%

MOAD


Mother of All Databases (MOAD) - Polypharmacology Tools and Their Utility in Drug Repurposing.
23%

AICD


Anti-Inflamamtory Compounds Database for drug discovery.
23%

FoldamerDB


The FoldamerDB is an open source database of foldamers. Foldamers are molecules which mimics the folding of biological molecules into well defined conformation
23%

Antibodies Chemically Defined Database (ABCD)


A database for chemically defined antibodies.
23%

ProCarbDB


a database of carbohydrate-binding proteins. An open access database ready to answer your sweetest queries. Carbohydrate-binding proteins play crucial roles across all viruses and organisms
23%

ExonSkipDB


Functional annotation of exon skipping event in human. Exon skipping (ES), the most common alternative splicing event, has been reported to contribute to diverse human diseases due to the loss of functional domains sites or frame shifting of open re ...
23%

LDB


A database of high-resolution MS/MS spectra for lichen metabolites. The Global Natural Product Social Molecular Networking (GNPS) site creates a community for natural product researchers working with mass spectrometry data. MassIVE Datasets : Docum ...
23%

NaPLeS


A natural products likeness scorer-web application and database | NaPLeS - Natural Product Likeness Score calculator | NaPLeS is an open source web application based fully on open data. Source and installation instructions are available at GitHub. Pl ...
23%

Dendrimer Pharmacokinetics Prediction (dendPoint)


A web resource for dendrimer pharmacokinetics investigation and prediction. Abstract: The development of nanomedicines currently suffers from a lack of efficient tools to predict pharmacokinetic behaviour without relying upon testing in large number ...
23%

GlyMDB


Glycan Microarray Database and Analysis Toolset.
23%

ARGminer


ARGminer is a web platform dedicated to the validation of ARGs by using sequence alignment and evidence from multiple sources.
23%

Thera-SAbDab


the Therapeutic Structural Antibody Database | The Structural Antibody Database | (Therapeutic Structural Antibody Database) | Thera-SAbDab paper: Raybould, M.I.J., Marks, C. et al (2019). Nucleic Acids Res. gkz827 [link] | SAbDab paper: Dunbar, J., ...
23%

LABiocin database


A new database designed specifically for Lactic Acid Bacteria bacteriocins | Bacteriocins from lactic acid bacteria (LAB) are successfully applied as natural alternatives to food preservation and to antibiotics; however, information on these antimicr ...
23%

D-lnc


A comprehensive database and analytical platform to dissect the modification of drugs on lncRNA expression
23%

ProtMiscuity


a database of promiscuous proteins. Promiscuous behaviour in proteins and enzymes remains a challenging feature to understand the structure-function relationship. Here we present ProtMiscuity, a manually curated online database of proteins showing c ...
23%

Mabellini


A genome-wide database for understanding the structural proteome and evaluating prospective antimicrobial targets of the emerging pathogen Mycobacterium abscessus. An on-line source for Mycobacterium abscessus modeled structural proteome. MabeLLINI ...
23%

EK-DRD


A Comprehensive Database for Drug Repositioning Inspired by Experimental Knowledge | Drug Repositioning Drug repositioning, or the identification of new indications for approved therapeutic drugs, has gained substantial traction with both academics a ...
22%

FeptideDB


A web application for new bioactive peptides from food protein
22%

MeLAD


An integrated resource for metalloenzyme-ligand associations | The Metalloenzyme-Ligand Association Database (MeLAD)
22%

Disco


Disco Cross Docking Benchmark server for automated pose and ranking prediction of ligand binding.
22%

RareLSD


a manually curated database of lysosomal enzymes associated with rare diseases. RareLSD: Database for Human Lysosomal Enzymes. RareLSD: A Database for Human Lysosomal Enzymes. RareLSD is a manually curated database of 63 lysosomal enzymes present i ...
22%

GTDB


an integrated resource for glycosyltransferase sequences and annotations. Glycosyltransferases (GTs), a large class of carbohydrate-active enzymes, adds glycosyl moieties to various substrates to generate multiple bioactive compounds, including natu ...
22%

MolMeDB: Molecules on Membranes Database


MolMeDB is an open chemistry database concerning the interaction of molecules with membranes.
22%

MMsINC


Database of commercially-available compounds for virtual screening and chemoinformatics
22%

KLIFs


Kinase-ligand Interaction Fingerprints and Structures
22%

Lipase Engineering 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 ...
22%

ChemBank


ChemBank is a public, web-based informatics environment created by the Broad Institute's Chemical Biology Program and funded in large part by the National Cancer Institute's Initiative for Chemical Genetics (ICG). This knowledge environment includes ...
21%

Het-PDB Navi


Het-PDB Navi is a database that collects small molecules found in Protein Data Bank (PDB). An atomic reality of protein function is based on interactions between a protein and another molecule. One of the approaches to assume protein functions from t ...
21%

HybridMolDB


A Manually Curated Database Dedicated to Hybrid Molecules for Chemical Biology and Drug Discovery | Hybrid Molecules is defined as the design of new chemical molecule that hybridizes two or more pharmacophoric moieties from known identical or non-ide ...
21%

R.E.DD.B.


RESP and ESP atomic charges and force field libraries for small molecules and molecular fragments
21%

SuperToxic


A comprehensive database of toxic compounds
21%

mVOC


Microbial Volatile Organic Compounds
21%

SuperScent


Database of flavors and scents
21%

SwePep


An endogenous peptide database.
21%

Yvis


Antibody high-density alignment visualization and analysis platform with an integrated database.
21%

Anabel


A software designed for the analysis of binding curves with which to evaluate the interactions of biomolecules.
21%

DDAP


Docking domain affinity and biosynthetic pathway prediction tool for type I polyketide synthases.
21%

Canvass


A Crowd-Sourced, Natural Product Screening Library for Exploring Biological Space.
21%

PDB-Ligand


PDB-Ligand is a three dimensional structure database of small molecular ligands that are bound to larger biomolecules deposited in the Protein Data Bank (PDB). One unique feature of PDB-Ligand is that one can browse, classify, superimpose, and visual ...
21%

HIC-Up


HIC-Up ("Hetero-compound Information Centre - Uppsala") is a repository of structure-related information about the small molecules (ligands, co-factors, ions, metal-clusters, etc.) that occur in complex with larger biomolecules in any of the structur ...
21%

BAGEL4


Mine bacterial (meta-)genomic DNA for bacteriocins and RiPPs. Additionally it provides databases and a BLAST against the core peptide databases.
21%

GRINdb


A unified and manually curated repertoire of GRIN variants. A CURATED DATABASE FOR GRIN VARIANTS.
21%

Gliome database


A comprehensive web-based tool to access and analyze glia secretome data. Gliome Database has the following feature regarding glia-secreted proteins.
21%

GLORYx


Prediction of the Metabolites Resulting from Phase 1 and Phase 2 Biotransformations of Xenobiotics. New E-Resource for Drug Discovery. Regioselectivity prediction for phase 1 and phase 2 metabolism.
21%

GRALL


The Glycine Receptor Allosteric Ligands Library (GRALL). GRALL – [IFM] LABORATOIRE D’INGÉNIERIE DES FONCTIONS MOLÉCULAIRES.
21%

GPCRmd


GPCRmd uncovers the dynamics of the 3D-GPCRome. The online resource for GPCR simulations. GPCRmd is an online platform with web-based visualization capabilities and a comprehensive analysis toolbox that allows scientists from any discipline to visu ...
21%

ExCAPE-DB


Integrated large scale dataset facilitating Big Data analysis in chemogenomics.
21%

KOFFI


new binding kinetics database and its integration in an open-source binding analysis software. Kinetics OF Featured Interactions. KOFFI-DB (???) is an article based database for kinetic constants of biomolecular interactions. We focused on interact ...
21%

Microbe Directory


An Expanded Database of Ecological and Phenotypical Features of Microbes. Microbial communities are an incredibly fascinating and genetically diverse set of organisms that live with us, in us, and around us! Explore them all using the Microbe Direct ...
21%

HuskinDB


Database for skin permeation of xenobiotics. Jupyter Notebook which leads through the code used to create huskinDB publication Figures. huskinDB is a human skin permeation database containing information on experimental protocols used. It provides ...
21%

PDEStrIAn


The database revolves around the protein structure of catalytic PDE domains and the way PDE inhibitors can interact with them. It contains a systematic analysis of all phosphodiesterase (PDE) catalytic domain crystal structures present in the Protein ...
21%

Automated Topology Builder (ATB)


The Automated Topology Builder (ATB) and Repository is intended to facilitate the development of molecular force fields for Molecular Dynamics or Monte Carlo simulations of biomolecular systems. Applications include the study of biomolecule:ligand co ...
21%

LinkPhinder


Accurate Prediction of Kinase-Substrate Networks Using Knowledge Graphs. Abstract Phosphorylation of specific substrates by protein kinases is a key control mechanism for vital cell-fate decisions and other cellular processes. However, discovering s ...
21%

FlavoDb


A web-based chemical repository of flavonoid compounds. Flavonoids are richly diverse polyphenolic plant secondary metabolites that are known to be crucial component of human diet. These compounds are attributed with variety of nutritional as well a ...
21%

Avian Immunome DB


Avian Immunome DB is a user-friendly interface for extracting genetic information about the avian immune system. The avian immune system is characterised by a cascade of complex biological processes underlaid by more than 1000 different genes.
21%

BiasDB


A Comprehensive Database for Biased GPCR Ligands | A manually curated database of biased GPCR ligands | BiasDB[1] is a manually curated database containing all published biased GPCR ligands. BiasDB currently contains 615 bias cases of signaling bias ...
21%

Glutantbase


A database for improving the rational design of glucose-tolerant β-glucosidases. A database of mutant β-glucosidases. Glutantbase is a database, webtool and method to evaluate mutations for β-glucosidases proteins used in industrial applications. G ...
21%

SuperDrug


The database contains approximately 2500 3D-structures of active ingredients of essential marketed drugs. For selection purposes and for correlation of structural similarity with medical application, the assignment of the Anatomical Therapeutic Chemi ...
21%

GapMind


Automated annotation of amino acid biosynthesis | Abstract GapMind is a web-based tool for annotating amino acid biosynthesis in bacteria and archaea ( http: papers.genomics.lbl gov gaps ). GapMind incorporates many variant pathways and 130 different ...
21%

HKPocket


Human kinase pocket database for drug design. BACKGROUND:The kinase pocket structural information is important for drug discovery targeting cancer or other diseases. Although some kinase sequence, structure or drug databases have been developed, the ...
21%

HLA Ligand Atlas


The HLA Ligand Atlas. A resource of natural HLA ligands presented on benign tissues | The HLA Ligand Atlas is a comprehensive, tissue and HLA allele specific collection of HLA ligands, generated from more than 1,000 MS experiments | This website uses ...
21%

mzCloud


mzCloud is an extensively curated database of high-resolution tandem mass spectra that are arranged into spectral trees. MS/MS and multi-stage MSn spectra were acquired at various collision energies, precursor m/z, and isolation widths using Collisio ...
21%

DistAA


Database of amino acid distances in proteins and web application for statistical review of distances. Three-dimensional structure of a protein chain is determined by its amino acid interactions. One approach to the analysis of amino acid interaction ...
21%

*ReputationScore indicates how established a given datasource is. Find out more.




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