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 Ga0207684_10000085

Scaffold Ga0207684_10000085


Overview

Basic Information
Taxon OID3300025910 Open in IMG/M
Scaffold IDGa0207684_10000085 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-1 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)175922
Total Scaffold Genes167 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)114 (68.26%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(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?
F003994Metagenome458Y
F004612Metagenome / Metatranscriptome431Y
F032436Metagenome180Y
F103843Metagenome101Y

Sequences

Protein IDFamilyRBSSequence
Ga0207684_10000085132F103843AGGAGGMKRTSIVAGLTLSFAMLLCTVSMLIRPVFAESCSARCRSGGQVTCYGYSCTAKDGVGCSSYDQNGRLIIEMPCSAEMELQ
Ga0207684_10000085147F003994GAGMAMNKRREYETTFVVQCIWCGSKIRDDKEEEAKGVCLKCFYQILSNHLSAQKRTVYGEFVSDR
Ga0207684_10000085149F032436AGGMAISNELSSDVAIAILANKKSPQELKQLKDIILQVHSVLQKMSEETRVYRFKKRLKERTKGA
Ga0207684_1000008566F004612GGAMQSLVVKISNPDTVHAIAEAAKRQGTTPEAAALELLETAVLAQKPFEQIVEPIARSFDESGMSEEDLDDLVKQTQKAIHEERRRNE
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