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 Ga0244775_10187641

Scaffold Ga0244775_10187641


Overview

Basic Information
Taxon OID3300024346 Open in IMG/M
Scaffold IDGa0244775_10187641 Open in IMG/M
Source Dataset NameWhole water sample coassembly
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1737
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Nitrosomonadales → Methylophilaceae → unclassified Methylophilaceae → Methylophilaceae bacterium(Source: UniRef50)

Ecosystem & Geography

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

Source Dataset Sampling Location
Location NameUSA: Columbia River Estuary
CoordinatesLat. (o)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000473Metagenome / Metatranscriptome1097Y
F000671Metagenome / Metatranscriptome945Y
F011938Metagenome / Metatranscriptome285Y
F013878Metagenome / Metatranscriptome267Y

Sequences

Protein IDFamilyRBSSequence
Ga0244775_101876412F000671GAGGMEKILCYSCNKSKNKLDVRKSSLMPINLLICETCNSAKLEPRWVVILAGRSNGPDHVKEFIVKRRYIGSEITASELLI
Ga0244775_101876413F011938GGAGGVIEYYDTTHIVYIYSEECYGTVEKLGAWASTVKYIVNGTEYNELMENDEFTIVDEIVFKHIEESN
Ga0244775_101876414F000473GAGGMFIDKSADKQREHFKYGINHWTGEPAKPVFYTEEMKKKVHEIKKPSLLLMDIVMYPDFLALRLYEDNFLQFEGIKKEMVIDYVKRVKQLIESYGVRCEMEGKPSDRVL
Ga0244775_101876416F013878AGGMLNLTELGVEVFIKKAKNITPFWDNYDLIIWKKDHNGFTNVKGMFRENAWGIAEKISVNDNGLWKLPTKYVRNFK
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Institute for Fundamental Biomedical Research
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