Enzyme nomenclature database

Names
More detailed information about this field from each metasource.

Enzyme nomenclature database
metasource: Fairsharing.org
version: None

ENZYME
metasource: Fairsharing.org
version: None

ENZYME - Enzyme nomenclature database
metasource: bio.tools
version: extracted_at: 2022-11-04T11:32:13.516556

enzyme
metasource: bio.tools
version: extracted_at: 2022-11-04T11:32:13.516556

Other names: ENZYME, ENZYME - Enzyme nomenclature database, enzyme

ENZYME is a repository of information relative to the nomenclature of enzymes. It is primarily based on the recommendations of the Nomenclature Committee of the International Union of Biochemistry and Molecular Biology (IUBMB) and it describes each type of characterized enzyme for which an EC (Enzyme Commission) number has been provided. The database is complete and up to date. It is regularly updated to reflect updates and additions to the nomenclature.

Webpage:

https://enzyme.expasy.org/

Licence:

Name: ExPASy Terms of Use
URL: https://www.expasy.org/terms-of-use

Publications:

Publications
More detailed information about this field from each metasource.

The ENZYME database in 2000
PMID: 10592255
metasource: Fairsharing.org
version: None

http://dx.doi.org/10.1093/nar/28.1.304
metasource: bio.tools
version: extracted_at: 2022-11-04T11:32:13.516556

The ENZYME database in 2000 PubMed citations: 344.

344 articles citing: The ENZYME database in 2000

Organelle 16S rRNA amplicon sequencing enables profiling of active gut microbiota in murine model. PMID:35896837
In Vitro Growth-Inhibitory Synergistic Effect of Zinc Pyrithione in Combination with Gentamicin against Bacterial Skin Pathogens of Livestock. PMID:35884214
Deep embeddings to comprehend and visualize microbiome protein space. PMID:35725732
Novel Bioinformatics Strategies Driving Dynamic Metaproteomic Studies. PMID:35612752
Identification of LINE retrotransposons and long non-coding RNAs expressed in the octopus brain. PMID:35581640
Nuclear Magnetic Resonance-Measured Ionized Magnesium Is Inversely Associated with Type 2 Diabetes in the Insulin Resistance Atherosclerosis Study. PMID:35565760
LOMETS3: integrating deep learning and profile alignment for advanced protein template recognition and function annotation. PMID:35420129
Obesity influences composition of salivary and fecal microbiota and impacts the interactions between bacterial taxa. PMID:35384379
Considerations for constructing a protein sequence database for metaproteomics. PMID:35242286
The crewed journey to Mars and its implications for the human microbiome. PMID:35125119
Bacterial Communities in Lanna Phak-Gard-Dong (Pickled Mustard Green) from Three Different Ethnolinguistic Groups in Northern Thailand. PMID:35053147
Quantifying structural relationships of metal-binding sites suggests origins of biological electron transfer. PMID:35030025
Impact of intensive lifestyle intervention on gut microbiota composition in type 2 diabetes: a post-hoc analysis of a randomized clinical trial. PMID:34965188
Systems biology and machine learning approaches identify drug targets in diabetic nephropathy. PMID:34873190
The Methods of Digging for "Gold" within the Salt: Characterization of Halophilic Prokaryotes and Identification of Their Valuable Biological Products Using Sequencing and Genome Mining Tools. PMID:34828362
Rhea, the reaction knowledgebase in 2022. PMID:34755880
CyanoOmicsDB: an integrated omics database for functional genomic analysis of cyanobacteria. PMID:34614159
Discovering and Summarizing Relationships Between Chemicals, Genes, Proteins, and Diseases in PubChem. PMID:34322655
Annotating Putative D. discoideum Proteins Using I-TASSER. PMID:34278246
Analysis and application of a suite of recombinant endo-β(1,3)-D-glucanases for studying fungal cell walls. PMID:34217291
Machine learning differentiates enzymatic and non-enzymatic metals in proteins. PMID:34140507
Structure-based protein function prediction using graph convolutional networks. PMID:34039967
Integrating taxonomic, functional, and strain-level profiling of diverse microbial communities with bioBakery 3. PMID:33944776
Expasy, the Swiss Bioinformatics Resource Portal, as designed by its users. PMID:33849055
Magnesium: Biochemistry, Nutrition, Detection, and Social Impact of Diseases Linked to Its Deficiency. PMID:33808247
Extracellular Vesicles and Preeclampsia: Current Knowledge and Future Research Directions. PMID:33779928
The evolution of oxygen-utilizing enzymes suggests early biosphere oxygenation. PMID:33633374
The methyltransferase METTL9 mediates pervasive 1-methylhistidine modification in mammalian proteomes. PMID:33563959
Functional characterisation of the transcriptome from leaf tissue of the fluoroacetate-producing plant, Dichapetalum cymosum, in response to mechanical wounding. PMID:33239700
Repositioned Drugs for Chagas Disease Unveiled via Structure-Based Drug Repositioning. PMID:33233837
A Collection of Benchmark Data Sets for Knowledge Graph-based Similarity in the Biomedical Domain. PMID:33181823
Computational strategies to combat COVID-19: useful tools to accelerate SARS-CoV-2 and coronavirus research. PMID:33147627
Magnesium Absorption in Intestinal Cells: Evidence of Cross-Talk between EGF and TRPM6 and Novel Implications for Cetuximab Therapy. PMID:33114586
A Need for Improved Cellulase Identification from Metagenomic Sequence Data. PMID:33067195
Metabolic pathway inference using multi-label classification with rich pathway features. PMID:33001968
Novel variant in the CNNM2 gene associated with dominant hypomagnesemia. PMID:32997713
Molecular Mechanisms of Metal Toxicity in the Pathogenesis of Alzheimer's Disease. PMID:32889653
Phenotypic and molecular spectrum of pyridoxamine-5'-phosphate oxidase deficiency: A scoping review of 87 cases of pyridoxamine-5'-phosphate oxidase deficiency. PMID:32888189
The Flavoproteome of the Model Plant Arabidopsis thaliana. PMID:32731628
Birth of a pathway for sulfur metabolism in early amniote evolution. PMID:32601391
Circulating Ionized Magnesium as a Measure of Supplement Bioavailability: Results from a Pilot Study for Randomized Clinical Trial. PMID:32353962
DeepKinZero: zero-shot learning for predicting kinase-phosphosite associations involving understudied kinases. PMID:32044914
HAMAP as SPARQL rules-A portable annotation pipeline for genomes and proteomes. PMID:32034905
Compartment and hub definitions tune metabolic networks for metabolomic interpretations. PMID:31972021
Modeling aspects of the language of life through transfer-learning protein sequences. PMID:31847804
The human DEPhOsphorylation Database DEPOD: 2019 update. PMID:31836896
Reconstruction and analysis of a Kluyveromyces marxianus genome-scale metabolic model. PMID:31694544
Enzyme annotation in UniProtKB using Rhea. PMID:31688925
Unraveling allosteric landscapes of allosterome with ASD. PMID:31665428
Bioengineering tools for the production of pharmaceuticals: current perspective and future outlook. PMID:31656120
ProCarbDB: a database of carbohydrate-binding proteins. PMID:31598690
Genus for biomolecules. PMID:31584078
Pseudomonas spp. are key players in agricultural biogas substrate degradation. PMID:31492882
A Structure-Informed Atlas of Human-Virus Interactions. PMID:31474372
I-TASSER gateway: A protein structure and function prediction server powered by XSEDE. PMID:31427836
The Landscape of Genetic Content in the Gut and Oral Human Microbiome. PMID:31415755
Obese Individuals with and without Type 2 Diabetes Show Different Gut Microbial Functional Capacity and Composition. PMID:31399369
FunFam protein families improve residue level molecular function prediction. PMID:31319797
Unveiling the presence of biosynthetic pathways for bioactive compounds in the Thalassiosira rotula transcriptome. PMID:31289324
iMet: A graphical user interface software tool to merge metabolic networks. PMID:31286073
Integrated analysis of microRNA regulation and its interaction with mechanisms of epigenetic regulation in the etiology of systemic lupus erythematosus. PMID:31237906
metaQuantome: An Integrated, Quantitative Metaproteomics Approach Reveals Connections Between Taxonomy and Protein Function in Complex Microbiomes. PMID:31235611
Recent trends in molecular diagnostics of yeast infections: from PCR to NGS. PMID:31158289
The genomes of polyextremophilic cyanidiales contain 1% horizontally transferred genes with diverse adaptive functions. PMID:31149898
Secretion of DNases by Marine Bacteria: A Culture Based and Bioinformatics Approach. PMID:31134017
Substrate inhibition imposes fitness penalty at high protein stability. PMID:31097595
LOMETS2: improved meta-threading server for fold-recognition and structure-based function annotation for distant-homology proteins. PMID:31081035
Marek's Disease Virus Regulates the Ubiquitylome of Chicken CD4+ T Cells to Promote Tumorigenesis. PMID:31035338
Sunbeam: an extensible pipeline for analyzing metagenomic sequencing experiments. PMID:30902113
Environmental pH modulates transcriptomic responses in the fungus Fusarium sp. associated with KSHB Euwallacea sp. near fornicatus. PMID:30285612
Binding site matching in rational drug design: algorithms and applications. PMID:30169563
Functional insights into the infective larval stage of Anisakis simplex s.s., Anisakis pegreffii and their hybrids based on gene expression patterns. PMID:30086708
Disentangling the drivers of functional complexity at the metagenomic level in Shark Bay microbial mat microbiomes. PMID:29980796
HFSP: high speed homology-driven function annotation of proteins. PMID:29950013
Exploring the functional impact of alternative splicing on human protein isoforms using available annotation sources. PMID:29931155
Tissue-Specific Analysis of Pharmacological Pathways. PMID:29920991
Improved enzyme annotation with EC-specific cutoffs using DETECT v2. PMID:29722785
Evidence That Speciation of Oxovanadium Complexes Does Not Solely Account for Inhibition of Leishmania Acid Phosphatases. PMID:29707535
Systematic characterization of pan-cancer mutation clusters. PMID:29572294
Phylogeny of Vibrio vulnificus from the Analysis of the Core-Genome: Implications for Intra-Species Taxonomy. PMID:29358930
Gene-trait matching across the Bifidobacterium longum pan-genome reveals considerable diversity in carbohydrate catabolism among human infant strains. PMID:29310579
Transcriptomic characterization of Caecomyces churrovis: a novel, non-rhizoid-forming lignocellulolytic anaerobic fungus. PMID:29270219
Comparative Genome Analysis Reveals Adaptation to the Ectophytic Lifestyle of Sooty Blotch and Flyspeck Fungi. PMID:29126189
Biometal Dyshomeostasis and Toxic Metal Accumulations in the Development of Alzheimer's Disease. PMID:29114205
Target-Pathogen: a structural bioinformatic approach to prioritize drug targets in pathogens. PMID:29106651
Mechanism and Catalytic Site Atlas (M-CSA): a database of enzyme reaction mechanisms and active sites. PMID:29106569
Human microbiome signatures of differential colorectal cancer drug metabolism. PMID:29104759
SABIO-RK: an updated resource for manually curated biochemical reaction kinetics. PMID:29092055
Software-aided approach to investigate peptide structure and metabolic susceptibility of amide bonds in peptide drugs based on high resolution mass spectrometry. PMID:29091918
A draft genome sequence of the rose black spot fungus Diplocarpon rosae reveals a high degree of genome duplication. PMID:28981525
Molecular Imaging of Hydrolytic Enzymes Using PET and SPECT. PMID:28927325
De novo assembly of a transcriptome from the eggs and early embryos of Astropecten aranciacus. PMID:28873438
Genomic analysis of methanogenic archaea reveals a shift towards energy conservation. PMID:28826405
Exploring general-purpose protein features for distinguishing enzymes and non-enzymes within the twilight zone. PMID:28732462
DES-TOMATO: A Knowledge Exploration System Focused On Tomato Species. PMID:28729549
Structural properties of genotype-phenotype maps. PMID:28679667
ChloroKB: A Web Application for the Integration of Knowledge Related to Chloroplast Metabolic Network. PMID:28442501
Exploring the differences in metabolic behavior of astrocyte and glioblastoma: a flux balance analysis approach. PMID:28392849
DES-ncRNA: A knowledgebase for exploring information about human micro and long noncoding RNAs based on literature-mining. PMID:28387604
Comparative analysis of sterol acquisition in the oomycetes Saprolegnia parasitica and Phytophthora infestans. PMID:28152045
Protein Bioinformatics Databases and Resources. PMID:28150231
Internet Databases of the Properties, Enzymatic Reactions, and Metabolism of Small Molecules-Search Options and Applications in Food Science. PMID:27929431
InterPro in 2017-beyond protein family and domain annotations. PMID:27899635
The Human Kinome Targeted by FDA Approved Multi-Target Drugs and Combination Products: A Comparative Study from the Drug-Target Interaction Network Perspective. PMID:27828998
Updates in Rhea - an expert curated resource of biochemical reactions. PMID:27789701
Reconstruction of the Fatty Acid Biosynthetic Pathway of Exiguobacterium antarcticum B7 Based on Genomic and Bibliomic Data. PMID:27595107
Order, Disorder, and Everything in Between. PMID:27548131
Comparison of FDA Approved Kinase Targets to Clinical Trial Ones: Insights from Their System Profiles and Drug-Target Interaction Networks. PMID:27547755
Representing and querying disease networks using graph databases. PMID:27462371
Proteotyping of biogas plant microbiomes separates biogas plants according to process temperature and reactor type. PMID:27462366
Identifying Aspects of the Post-Transcriptional Program Governing the Proteome of the Green Alga Micromonas pusilla. PMID:27434306
Systematic Identification of Anti-Fungal Drug Targets by a Metabolic Network Approach. PMID:27379244
MRE: a web tool to suggest foreign enzymes for the biosynthesis pathway design with competing endogenous reactions in mind. PMID:27131375
Standardized benchmarking in the quest for orthologs. PMID:27043882
Topology based identification and comprehensive classification of four-transmembrane helix containing proteins (4TMs) in the human genome. PMID:27030248
CoDNaS 2.0: a comprehensive database of protein conformational diversity in the native state. PMID:27022160
Selectivity profiling of BCRP versus P-gp inhibition: from automated collection of polypharmacology data to multi-label learning. PMID:26855674
A network analysis of cofactor-protein interactions for analyzing associations between human nutrition and diseases. PMID:26777674
Metagenome-assembled genomes uncover a global brackish microbiome. PMID:26667648
Towards improved genome-scale metabolic network reconstructions: unification, transcript specificity and beyond. PMID:26615025
Annotation of rule-based models with formal semantics to enable creation, analysis, reuse and visualization. PMID:26559508
SubtiWiki 2.0--an integrated database for the model organism Bacillus subtilis. PMID:26433225
Dissecting Leishmania infantum Energy Metabolism - A Systems Perspective. PMID:26367006
Assessing the Metabolic Diversity of Streptococcus from a Protein Domain Point of View. PMID:26366735
Predicting Ecological Roles in the Rhizosphere Using Metabolome and Transportome Modeling. PMID:26332409
De novo sequencing and analysis of Lophophora williamsii transcriptome, and searching for putative genes involved in mescaline biosynthesis. PMID:26330142
The Immunoreactive Exo-1,3-β-Glucanase from the Pathogenic Oomycete Pythium insidiosum Is Temperature Regulated and Exhibits Glycoside Hydrolase Activity. PMID:26263509
Strain-resolved microbial community proteomics reveals simultaneous aerobic and anaerobic function during gastrointestinal tract colonization of a preterm infant. PMID:26191049
Transcriptome sequencing of three Pseudo-nitzschia species reveals comparable gene sets and the presence of Nitric Oxide Synthase genes in diatoms. PMID:26189990
Application of a hierarchical enzyme classification method reveals the role of gut microbiome in human metabolism. PMID:26099921
Novel systems modeling methodology in comparative microbial metabolomics: identifying key enzymes and metabolites implicated in autism spectrum disorders. PMID:25913376
Metaproteomics of complex microbial communities in biogas plants. PMID:25874383
iPathCase(KEGG): An iPad interface for KEGG metabolic pathways. PMID:25825656
The Listeria monocytogenes strain 10403S BioCyc database. PMID:25819074
Subsistence strategies in traditional societies distinguish gut microbiomes. PMID:25807110
Potential inhibitors for isocitrate lyase of Mycobacterium tuberculosis and non-M. tuberculosis: a summary. PMID:25649791
The application of the open pharmacological concepts triple store (open PHACTS) to support drug discovery research. PMID:25522365
Determining microbial products and identifying molecular targets in the human microbiome. PMID:25440055
Plant-PrAS: a database of physicochemical and structural properties and novel functional regions in plant proteomes. PMID:25435546
The InterPro protein families database: the classification resource after 15 years. PMID:25428371
Circulating biomarkers of one-carbon metabolism in relation to renal cell carcinoma incidence and survival. PMID:25376861
CATH: comprehensive structural and functional annotations for genome sequences. PMID:25348408
Updates in Rhea--a manually curated resource of biochemical reactions. PMID:25332395
Comparative genomics of nucleotide metabolism: a tour to the past of the three cellular domains of life. PMID:25230797
Involvement of PG2212 zinc finger protein in the regulation of oxidative stress resistance in Porphyromonas gingivalis W83. PMID:25225267
PlantCAZyme: a database for plant carbohydrate-active enzymes. PMID:25125445
Proteomic analysis of the Plasmodium male gamete reveals the key role for glycolysis in flagellar motility. PMID:25124718
Metabolome variations in the Porphyromonas gingivalis vimA mutant during hydrogen peroxide-induced oxidative stress. PMID:25055986
Structural DNA nanotechnology: state of the art and future perspective. PMID:25029570
The evolution of enzyme function in the isomerases. PMID:25000289
Fungal Beta-glucosidases: a bottleneck in industrial use of lignocellulosic materials. PMID:24970184
Functional evolution of PLP-dependent enzymes based on active-site structural similarities. PMID:24920327
Profiling the orphan enzymes. PMID:24906382
Coiled-coil proteins facilitated the functional expansion of the centrosome. PMID:24901223
Finding sequences for over 270 orphan enzymes. PMID:24826896
Systematic detection of internal symmetry in proteins using CE-Symm. PMID:24681267
M-Finder: Uncovering functionally associated proteins from interactome data integrated with GO annotations. PMID:24565382
Functional characterization of polysaccharide utilization loci in the marine Bacteroidetes 'Gramella forsetii' KT0803. PMID:24522261
InterProScan 5: genome-scale protein function classification. PMID:24451626
Motif-directed redesign of enzyme specificity. PMID:24407908
iEzy-drug: a web server for identifying the interaction between enzymes and drugs in cellular networking. PMID:24371828
LigSearch: a knowledge-based web server to identify likely ligands for a protein target. PMID:24311580
ArchDB 2014: structural classification of loops in proteins. PMID:24265221
MultitaskProtDB: a database of multitasking proteins. PMID:24253302
MetaRef: a pan-genomic database for comparative and community microbial genomics. PMID:24203705
Analytical tools and databases for metagenomics in the next-generation sequencing era. PMID:24124405
A broader view: microbial enzymes and their relevance in industries, medicine, and beyond. PMID:24106701
Association of vitamin B6, vitamin B12 and methionine with risk of breast cancer: a dose-response meta-analysis. PMID:23907430
TCW: transcriptome computational workbench. PMID:23874959
JBioWH: an open-source Java framework for bioinformatics data integration. PMID:23846595
Metabolic potential of the organic-solvent tolerant Pseudomonas putida DOT-T1E deduced from its annotated genome. PMID:23815283
Functional consequences of microbial shifts in the human gastrointestinal tract linked to antibiotic treatment and obesity. PMID:23782552
Rapid countermeasure discovery against Francisella tularensis based on a metabolic network reconstruction. PMID:23704901
Identification of mitochondrial coenzyme a transporters from maize and Arabidopsis. PMID:23590975
Discovery-2: an interactive resource for the rational selection and comparison of putative drug target proteins in malaria. PMID:23537208
The complete genome sequence of the plant growth-promoting bacterium Pseudomonas sp. UW4. PMID:23516524
De novo transcriptome sequencing and analysis for Venturia inaequalis, the devastating apple scab pathogen. PMID:23349770
FastAnnotator--an efficient transcript annotation web tool. PMID:23281853
Functional relevance of dynamic properties of Dimeric NADP-dependent Isocitrate Dehydrogenases. PMID:23281650
New functional families (FunFams) in CATH to improve the mapping of conserved functional sites to 3D structures. PMID:23203873
Library of Apicomplexan Metabolic Pathways: a manually curated database for metabolic pathways of apicomplexan parasites. PMID:23193253
Enzyme informatics. PMID:23116471
Genome sequence of the bacterium Streptomyces davawensis JCM 4913 and heterologous production of the unique antibiotic roseoflavin. PMID:23043000
MESSA: MEta-Server for protein Sequence Analysis. PMID:23031578
Prediagnostic plasma pyridoxal 5'-phosphate (vitamin b6) levels and invasive breast carcinoma risk: the multiethnic cohort. PMID:22879204
Analysis of Babesia bovis infection-induced gene expression changes in larvae from the cattle tick, Rhipicephalus (Boophilus) microplus. PMID:22871314
Mining GO annotations for improving annotation consistency. PMID:22848383
TPX: Biomedical literature search made easy. PMID:22829734
Template-based protein structure modeling using the RaptorX web server. PMID:22814390
A global characterization and identification of multifunctional enzymes. PMID:22723914
Genome sequencing and mapping reveal loss of heterozygosity as a mechanism for rapid adaptation in the vegetable pathogen Phytophthora capsici. PMID:22712506
An elm EST database for identifying leaf beetle egg-induced defense genes. PMID:22702658
Quality of computationally inferred gene ontology annotations. PMID:22693439
A phylogenetic analysis of normal modes evolution in enzymes and its relationship to enzyme function. PMID:22651983
The use of evolutionary patterns in protein annotation. PMID:22633559
The genome of the polar eukaryotic microalga Coccomyxa subellipsoidea reveals traits of cold adaptation. PMID:22630137
Resolving the ortholog conjecture: orthologs tend to be weakly, but significantly, more similar in function than paralogs. PMID:22615551
An in silico platform for the design of heterologous pathways in nonnative metabolite production. PMID:22578364
The complete genome sequence of the acarbose producer Actinoplanes sp. SE50/110. PMID:22443545
A top-down approach to classify enzyme functional classes and sub-classes using random forest. PMID:22376768
A molecular analysis of desiccation tolerance mechanisms in the anhydrobiotic nematode Panagrolaimus superbus using expressed sequenced tags. PMID:22281184
KB-Rank: efficient protein structure and functional annotation identification via text query. PMID:22270457
MetRxn: a knowledgebase of metabolites and reactions spanning metabolic models and databases. PMID:22233419
Modulating protein-protein interactions with small molecules: the importance of binding hotspots. PMID:22198293
Advanced stoichiometric analysis of metabolic networks of mammalian systems. PMID:22196224
Novel search method for the discovery of functional relationships. PMID:22180409
VimA-dependent modulation of acetyl coenzyme A levels and lipid A biosynthesis can alter virulence in Porphyromonas gingivalis. PMID:22144476
MetaBase--the wiki-database of biological databases. PMID:22139927
neXtProt: a knowledge platform for human proteins. PMID:22139911
Rhea--a manually curated resource of biochemical reactions. PMID:22135291
ProtoNet 6.0: organizing 10 million protein sequences in a compact hierarchical family tree. PMID:22121228
InterPro in 2011: new developments in the family and domain prediction database. PMID:22096229
Critical assessment of human metabolic pathway databases: a stepping stone for future integration. PMID:21999653
Integration of sequence-similarity and functional association information can overcome intrinsic problems in orthology mapping across bacterial genomes. PMID:21965536
Genomic basis of endosymbiont-conferred protection against an insect parasitoid. PMID:21948522
Computational methods for Gene Orthology inference. PMID:21690100
Support vector machine prediction of enzyme function with conjoint triad feature and hierarchical context. PMID:21689481
Mining metabolites: extracting the yeast metabolome from the literature. PMID:21687783
MarkUs: a server to navigate sequence-structure-function space. PMID:21672961
Common peptides study of aminoacyl-tRNA synthetases. PMID:21647378
Transcriptomics and molecular evolutionary rate analysis of the bladderwort (Utricularia), a carnivorous plant with a minimal genome. PMID:21639913
ModEnzA: Accurate Identification of Metabolic Enzymes Using Function Specific Profile HMMs with Optimised Discrimination Threshold and Modified Emission Probabilities. PMID:21541071
A survey of metabolic databases emphasizing the MetaCyc family. PMID:21523460
The Structural Biology Knowledgebase: a portal to protein structures, sequences, functions, and methods. PMID:21472436
A new approach to assess and predict the functional roles of proteins across all known structures. PMID:21445639
TargetMine, an integrated data warehouse for candidate gene prioritisation and target discovery. PMID:21408081
Mining the soluble chloroplast proteome by affinity chromatography. PMID:21365755
Genome (re-)annotation and open-source annotation pipelines. PMID:21255336
1,000 structures and more from the MCSG. PMID:21219649
Evolutionary innovations and the organization of protein functions in genotype space. PMID:21152394
BrEPS: a flexible and automatic protocol to compute enzyme-specific sequence profiles for functional annotation. PMID:21122127
PCDB: a database of protein conformational diversity. PMID:21097895
Extending CATH: increasing coverage of the protein structure universe and linking structure with function. PMID:21097779
Reconstruction and analysis of genome-scale metabolic model of a photosynthetic bacterium. PMID:21083885
PCDDB: the Protein Circular Dichroism Data Bank, a repository for circular dichroism spectral and metadata. PMID:21071417
Prediction and classification of aminoacyl tRNA synthetases using PROSITE domains. PMID:20860794
Prototypes of elementary functional loops unravel evolutionary connections between protein functions. PMID:20823313
Characterizing the metabolism of Dehalococcoides with a constraint-based model. PMID:20811585
The Human Oral Microbiome Database: a web accessible resource for investigating oral microbe taxonomic and genomic information. PMID:20624719
Genome-scale metabolic reconstruction and in silico analysis of methylotrophic yeast Pichia pastoris for strain improvement. PMID:20594333
Fast integration of heterogeneous data sources for predicting gene function with limited annotation. PMID:20507895
Reconstruction and validation of RefRec: a global model for the yeast molecular interaction network. PMID:20498836
Non-homologous isofunctional enzymes: a systematic analysis of alternative solutions in enzyme evolution. PMID:20433725
Large-scale analyses of glycosylation in cellulases. PMID:20172492
MicroScope: a platform for microbial genome annotation and comparative genomics. PMID:20157493
Prediction of functional class of proteins and peptides irrespective of sequence homology by support vector machines. PMID:20066123
Next generation transcriptomes for next generation genomes using est2assembly. PMID:20034392
Identifying significant genetic regulatory networks in the prostate cancer from microarray data based on transcription factor analysis and conditional independency. PMID:20025723
MetaBioME: a database to explore commercially useful enzymes in metagenomic datasets. PMID:19906710
The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases. PMID:19850718
EnzyMiner: automatic identification of protein level mutations and their impact on target enzymes from PubMed abstracts. PMID:19758466
FLORA: a novel method to predict protein function from structure in diverse superfamilies. PMID:19714201
Comparative 454 pyrosequencing of transcripts from two olive genotypes during fruit development. PMID:19709400
Enzyme classification with peptide programs: a comparative study. PMID:19630945
Identification of family-specific residue packing motifs and their use for structure-based protein function prediction: I. Method development. PMID:19543979
The energy profiles of atomic conformational transition intermediates of adenylate kinase. PMID:19507242
Designed human serum hyaluronidase 1 variant, HYAL1DeltaL, exhibits activity up to pH 5.9. PMID:19478093
Prediction of sub-cavity binding preferences using an adaptive physicochemical structure representation. PMID:19478002
Public databases and software for the pathway analysis of cancer genomes. PMID:19455256
Phylogenetic and functional assessment of orthologs inference projects and methods. PMID:19148271
The 2008 update of the Aspergillus nidulans genome annotation: a community effort. PMID:19146970
Toward understanding the conformational dynamics of RNA ligation. PMID:19133737
A survey of visualization tools for biological network analysis. PMID:19040716
OryGenesDB 2008 update: database interoperability for functional genomics of rice. PMID:19036791
The National Center for Biotechnology Information's Protein Clusters Database. PMID:18940865
ExplorEnz: the primary source of the IUBMB enzyme list. PMID:18776214
Genome-scale model for Clostridium acetobutylicum: Part I. Metabolic network resolution and analysis. PMID:18767192
Metabolomics approach for determining growth-specific metabolites based on Fourier transform ion cyclotron resonance mass spectrometry. PMID:18560811
Prediction of enzyme function by combining sequence similarity and protein interactions. PMID:18505562
Characterization and prediction of residues determining protein functional specificity. PMID:18450811
ProdoNet: identification and visualization of prokaryotic gene regulatory and metabolic networks. PMID:18440972
annot8r: GO, EC and KEGG annotation of EST datasets. PMID:18400082
ISOL@: an Italian SOLAnaceae genomics resource. PMID:18387209
Mining experimental evidence of molecular function claims from the literature. PMID:17942445
The integrated microbial genomes (IMG) system in 2007: data content and analysis tool extensions. PMID:17933782
MetaCrop: a detailed database of crop plant metabolism. PMID:17933764
An EST database from saffron stigmas. PMID:17925031
Linking microarray reporters with protein functions. PMID:17897448
Integrated network reconstruction, visualization and analysis using YANAsquare. PMID:17725829
PROCOGNATE: a cognate ligand domain mapping for enzymes. PMID:17720712
ExplorEnz: a MySQL database of the IUBMB enzyme nomenclature. PMID:17662133
A survey of orphan enzyme activities. PMID:17623104
The AnnoLite and AnnoLyze programs for comparative annotation of protein structures. PMID:17570147
CORRIE: enzyme sequence annotation with confidence estimates. PMID:17570146
The 2006 automated function prediction meeting. PMID:17570143
Advancing translational research with the Semantic Web. PMID:17493285
Structural and functional insights into Mimivirus ORFans. PMID:17490476
DBAli tools: mining the protein structure space. PMID:17478513
HMM-ModE--improved classification using profile hidden Markov models by optimising the discrimination threshold and modifying emission probabilities with negative training sequences. PMID:17389042
Analysis of 13000 unique Citrus clusters associated with fruit quality, production and salinity tolerance. PMID:17254327
SYSTOMONAS--an integrated database for systems biology analysis of Pseudomonas. PMID:17202169
PATRIC: the VBI PathoSystems Resource Integration Center. PMID:17142235
TomatEST database: in silico exploitation of EST data to explore expression patterns in tomato species. PMID:17142232
Identification of transcripts associated with cell wall metabolism and development in the stem of sugarcane by Affymetrix GeneChip Sugarcane Genome Array expression profiling. PMID:17111183
ORENZA: a web resource for studying ORphan ENZyme activities. PMID:17026747
Accelerating the reconstruction of genome-scale metabolic networks. PMID:16772023
EVEREST: automatic identification and classification of protein domains in all protein sequences. PMID:16749920
Structure-based function inference using protein family-specific fingerprints. PMID:16731985
From the similarity analysis of protein cavities to the functional classification of protein families using cavbase. PMID:16697007
Functional annotation prediction: all for one and one for all. PMID:16672244
BioWarehouse: a bioinformatics database warehouse toolkit. PMID:16556315
VANTED: a system for advanced data analysis and visualization in the context of biological networks. PMID:16519817
GenoLink: a graph-based querying and browsing system for investigating the function of genes and proteins. PMID:16417636
LMPD: LIPID MAPS proteome database. PMID:16381922
PUMA2--grid-based high-throughput analysis of genomes and metabolic pathways. PMID:16381888
DMAPS: a database of multiple alignments for protein structures. PMID:16381863
Probabilistic annotation of protein sequences based on functional classifications. PMID:16354297
ParPEST: a pipeline for EST data analysis based on parallel computing. PMID:16351758
HomoMINT: an inferred human network based on orthology mapping of protein interactions discovered in model organisms. PMID:16351748
Bioinformatics in microbial biotechnology--a mini review. PMID:15985162
The bioinformatics resource for oral pathogens. PMID:15980574
Comparison of substructural epitopes in enzyme active sites using self-organizing maps. PMID:15865062
Columba: an integrated database of proteins, structures, and annotations. PMID:15801979
Large scale hierarchical clustering of protein sequences. PMID:15663796
MetaRouter: bioinformatics for bioremediation. PMID:15608267
Metagrowth: a new resource for the building of metabolic hypotheses in microbiology. PMID:15608207
PDBsum more: new summaries and analyses of the known 3D structures of proteins and nucleic acids. PMID:15608193
The CATH Domain Structure Database and related resources Gene3D and DHS provide comprehensive domain family information for genome analysis. PMID:15608188
The SYSTERS Protein Family Database in 2005. PMID:15608183
ProtoNet 4.0: a hierarchical classification of one million protein sequences. PMID:15608180
PRECISE: a Database of Predicted and Consensus Interaction Sites in Enzymes. PMID:15608178
A functional hierarchical organization of the protein sequence space. PMID:15596019
EFICAz: a comprehensive approach for accurate genome-scale enzyme function inference. PMID:15576349
Predicting enzyme family class in a hybridization space. PMID:15498934
Retrieving sequences of enzymes experimentally characterized but erroneously annotated : the case of the putrescine carbamoyltransferase. PMID:15287962
Human cytomegalovirus carries a cell-derived phospholipase A2 required for infectivity. PMID:15220446
MitoProteome: mitochondrial protein sequence database and annotation system. PMID:14681458
IntEnz, the integrated relational enzyme database. PMID:14681451
E-MSD: an integrated data resource for bioinformatics. PMID:14681397
The Catalytic Site Atlas: a resource of catalytic sites and residues identified in enzymes using structural data. PMID:14681376
Enzyme-specific profiles for genome annotation: PRIAM. PMID:14602924
PANDORA: keyword-based analysis of protein sets by integration of annotation sources. PMID:14500825
The organization of the microbial biodegradation network from a systems-biology perspective. PMID:12973298
ExPASy: The proteomics server for in-depth protein knowledge and analysis. PMID:12824418
The Gene Ontology Annotation (GOA) project: implementation of GO in SWISS-PROT, TrEMBL, and InterPro. PMID:12654719
Using binning to maintain confidentiality of medical data. PMID:12463865
Newly identified cytochrome c oxidase operon in the nitrogen-fixing cyanobacterium Anabaena sp. strain PCC 7120 specifically induced in heterocysts. PMID:11948164
TTD: Therapeutic Target Database. PMID:11752352
ASPD (Artificially Selected Proteins/Peptides Database): a database of proteins and peptides evolved in vitro. PMID:11752292
Annotation transfer for genomics: measuring functional divergence in multi-domain proteins. PMID:11591640
Functional versatility and molecular diversity of the metabolic map of Escherichia coli. PMID:11544193
A cofactor-dependent phosphoglycerate mutase homolog from Bacillus stearothermophilus is actually a broad specificity phosphatase. PMID:11514674
Divergence of function in sequence-related groups of Escherichia coli proteins. PMID:11483578
Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. PMID:10802651
http://dx.doi.org/10.1093/nar/28.1.304

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catalytic activity
metasource: Fairsharing.org
version: None

classification
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version: None

enzyme
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version: None

enzyme commission number
metasource: Fairsharing.org
version: None

enzymes
metasource: bio.tools
version: extracted_at: 2022-11-04T11:32:13.516556

catalytic activity classification enzyme enzyme commission number enzyme

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More detailed information about this field from each metasource.

The ENZYME database in 2000
PMID: 10592255
metasource: Fairsharing.org
version: None

http://dx.doi.org/10.1093/nar/28.1.304
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version: extracted_at: 2022-11-04T11:32:13.516556

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Integrated relational Enzyme database

Enzyme Nomenclature

Enzyme Commission Number

ExplorEnz

BRENDA

IUBMB Nomenclature database

ORENZA

Enzyme Portal

IUPAC Nomenclature database

EzCatDB

TECRdb

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

Enzyme Mechanism Ontology

PROCOGNATE

CSA - Catalytic Site Atlas

Rhea

Enzyme Structure Function Ontology

MultiTaskDB

Protein Structure Change Database

PRofils pour l'Identification Automatique du Metabolisme

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Publications: Publications More detailed information about this field from each metasource. × The ENZYME database in 2000 PMID: 10592255 metasource: Fairsharing.org version: None http://dx.doi.org/10.1093/nar/28.1.304 metasource: bio.tools version: extracted_at: 2022-11-04T11:32:13.516556 Close

More to explore:

1/20

Integrated relational Enzyme database

Enzyme Nomenclature

Enzyme Commission Number

ExplorEnz

BRENDA

IUBMB Nomenclature database

ORENZA

Enzyme Portal

IUPAC Nomenclature database

EzCatDB

TECRdb

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

Enzyme Mechanism Ontology

PROCOGNATE

CSA - Catalytic Site Atlas

Rhea

Enzyme Structure Function Ontology

MultiTaskDB

Protein Structure Change Database

PRofils pour l'Identification Automatique du Metabolisme

Publications:

Publications
More detailed information about this field from each metasource.

The ENZYME database in 2000
PMID: 10592255
metasource: Fairsharing.org
version: None

http://dx.doi.org/10.1093/nar/28.1.304
metasource: bio.tools
version: extracted_at: 2022-11-04T11:32:13.516556