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 Ga0102871_1087374

Scaffold Ga0102871_1087374


Overview

Basic Information
Taxon OID3300007620 Open in IMG/M
Scaffold IDGa0102871_1087374 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1546C-02
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)899
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Archaea → unclassified Archaea → archaeon(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)46.2311Long. (o)-123.8825Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F009135Metagenome / Metatranscriptome322Y
F013524Metagenome / Metatranscriptome270Y
F024047Metagenome / Metatranscriptome207N
F042296Metagenome / Metatranscriptome158Y

Sequences

Protein IDFamilyRBSSequence
Ga0102871_10873741F024047N/AIMANVQTKDIIDWVKNAVEKKMIKELNIHNAKVYLSCDRPHPDVILETKNEYGDLQIVRFLII*
Ga0102871_10873742F009135N/AMMSKPKYYLKVNLPATFDDLDAEVIKKDLITYINSRNQYGALYGPKSSKKGIVVEKIIYSTNED*
Ga0102871_10873743F013524N/AMKTNKEVVNRLREFTQNNCNTTLDPKLCEDIRYLCDEVERFGVQMLLMNEYGDEDYITIQKYKSKLEKCQSKLNQYEPF*
Ga0102871_10873744F042296N/AMNRFKSIIKWCGVIVYAGFLATVAYAATLPEPIKVYLIISSRGGEYTIEKVYLKKENAEKYRDLFKDSHNY
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Institute for Fundamental Biomedical Research
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