UniProt Annotations
kbase_uniprot
Tenant: KBase · Snapshot 2026-04-29T21:35:53.838483+00:00
Schema status
discoveredCuration status
curatedSource
berdl-spark-connect://metrics.berdl.kbase.us:443Philosophy
Provide high-quality protein functional annotations. Access curated protein information for functional interpretation.
Citation & Attribution
Provider: KBase
Schema Browser
Tables (1)
uniprot_identifierKey Tables
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uniprot_identifier |
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Projects Using This Collection
Caulobacter Fur–Lipid A Loss
Why does inactivation of *fur* (the ferric uptake regulator) permit the loss of lipid A in *Caulobacter crescentus*, whe...
Self-Sufficiency, Anaerobic Toolkit, and Cultivation Bias in Clay-Confined Cultured Bacterial Genomes
Do BERDL's cultured bacterial genomes from clay-confined deep-subsurface environments recapitulate the genomic signature...
Subsurface Bacillota_B Specialization
Within the Bacillota_B phylum (Desulfosporosinus, BRH-c8a Peptococcaceae, BRH-c4a Desulfotomaculales, and other obligate...
Gene Function Ecological Agora
Across the prokaryotic tree (GTDB r214; 293,059 genomes / 27,690 species), build a multi-resolution **innovation + acqui...
Genotype × Condition → Phenotype Prediction from ENIGMA Growth Curves
Can we predict bacterial growth phenotype — at multiple resolutions from binary growth through continuous kinetics to co...
Atlas Pages
Pangenome Collection
Genome and pangenome tables for comparative genomics, conservation, openness, annotation, and cross-project derived products.
data typeGenomes and Pangenomes
Data type lens for genome metadata, pangenome structure, annotations, and species-level comparative genomics.
data typeGenes, Proteins, and Annotations
Gene and protein identifiers, functional annotation, literature coverage, orthology, and controlled vocabulary layers used to connect raw genomes to interpretable biology.
data typeLiterature, Structure, Reference, and Ontology
Reference layers that connect sequence-level observations to papers, structures, ontology terms, and external identifiers.
derived productDark Gene Prioritization Tables
Reusable ranked dark-gene candidates, covering sets, and experiment plans derived from fitness, pangenome, annotation, and ecology evidence.
data collectionUniProt
UniProt protein identifier cross-references
directionGene targets for critical-mineral bioprocessing
Use metal-specific fitness signals, annotations, modules, and structures to prioritize genes for bioleaching and biorecovery.
hypothesisStructures support metal-binding or transport roles
Top metal-specific candidates have predicted structures or topology consistent with metal binding, transport, or regulation.
opportunityDark Gene Structure Prioritization
Prioritize dark gene families for mechanistic review by joining fitness, cofitness, annotation novelty, and AlphaFold structure signals.
topicFitness-Validated Gene Function
Synthesis of essential genes, metabolic dependency, ICA modules, dark genes, and functional annotation repair through fitness evidence.