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 Ga0070706_100001580

Scaffold Ga0070706_100001580


Overview

Basic Information
Taxon OID3300005467 Open in IMG/M
Scaffold IDGa0070706_100001580 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-1 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)23764
Total Scaffold Genes22 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (59.09%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameUSA: Michigan: Kellogg Biological Station
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F011018Metagenome / Metatranscriptome296Y
F040377Metagenome / Metatranscriptome162N
F053135Metagenome / Metatranscriptome141Y

Sequences

Protein IDFamilyRBSSequence
Ga0070706_10000158010F011018GGAGGMPDQERLSYATAAPGAVQPCWLCGIRLPADHMVADGGSACADVRWYCLDKRGCTERWTARAARPADIHLSTAGMPDSWGSISLEPDVARR*
Ga0070706_10000158018F053135AGGAMNPYAAERLAKERIAEFQAEAAQRMPAGTAARVLRHQTGWALIQIGLALVTSSARRQHGTVSPELP*
Ga0070706_1000015802F040377AGGVAELVILPAGRSEWALCPPDEITWLDRATLSVGQDPTLHRSPRCPGLRHVQHRWELFSRDTSHAVYLAPYADGSPGHFRGVQAQAVNTLPPALPRFETHPVQLAEGEWVVSVGKWILPLRISPAQDDQLEEPAAAEPGPAGGEKNTVGAAQVPGAAALALPDAVSRVNAYLKRNGVARMALAYYYRDYILGTVAPQAAAMIDVAIALDLSSEGTVGEFKKELQRRIWNEQHHQRQLAQFLLANGLIGRPDLDRAIRVAAANEASGRTRLARERLGYRHRK*
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