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 Ga0102898_1006986

Scaffold Ga0102898_1006986


Overview

Basic Information
Taxon OID3300007658 Open in IMG/M
Scaffold IDGa0102898_1006986 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1555A-3
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2533
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (70.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Nitrosomonadales → Methylophilaceae → unclassified Methylophilaceae → Methylophilaceae bacterium(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)46.2024Long. (o)-123.9409Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F011394Metagenome / Metatranscriptome291Y
F080048Metagenome / Metatranscriptome115Y

Sequences

Protein IDFamilyRBSSequence
Ga0102898_100698610F080048GAGGMSEKILCYCCNKTKNSLSAKKSTLLNINLLLCETCIDNKLEPRWVVILAGRQ
Ga0102898_10069868F011394GGAMTFIDKDKDHFKYGINQWTGEPNKPTFYNKEMALKIRELKKPTPDLKMDIVKYPDFLAIRLYEDNFGRYDGSLKMRVIDYVEMVKKILESYGVRVELEGKPENGK*

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