NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0102825_1000023

Scaffold Ga0102825_1000023


Overview

Basic Information
Taxon OID3300007655 Open in IMG/M
Scaffold IDGa0102825_1000023 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - High salinity metaG S.579
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)31594
Total Scaffold Genes37 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)17 (45.95%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameColumbia River Estuary, USA
CoordinatesLat. (o)46.2Long. (o)-123.94Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006585Metagenome / Metatranscriptome369Y
F009068Metagenome / Metatranscriptome323N
F031083Metagenome / Metatranscriptome183N
F037741Metagenome / Metatranscriptome167Y

Sequences

Protein IDFamilyRBSSequence
Ga0102825_10000232F031083N/AMKNMNTEYKMGLGLPRGSKVIVKAGNRQADITLIENEDGHTWRVQIDRDLPETEYPTLENAILSAQTLFREVV*
Ga0102825_100002322F006585GGAMALNKLQKKDFSIAVKTGTDANKTKFKKEATQGEYYFATDTKKLYLAETTAGASDSTLAEFTPTATGV*
Ga0102825_100002325F037741N/AMPLFGLGLFIGDTDADSQVGPPTPGGPDGVIQTEAEDFLLVEAGQFLAFDE*
Ga0102825_10000236F009068N/AMAILQQSSNGNGPISGWPIEPINAGQYLAVCLDVKDSFGIQRPSYDDPSVIETLDVCRFLFGTQDGQMVQTGEMKISAHEKSKLVGVLTSWLGSNPGAGFDTESLRGKGCMINIIQKTSQKGTVYSDITSITPVMAGMEAQVPQAASFNIPGGASAPAPQATTQVTIDQPQVVQPAPVQVPVQVAQPVAPVAQQATFTAPVTSTVQPPF*
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Institute for Fundamental Biomedical Research
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