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 Ga0307503_10001212

Scaffold Ga0307503_10001212


Overview

Basic Information
Taxon OID3300028802 Open in IMG/M
Scaffold IDGa0307503_10001212 Open in IMG/M
Source Dataset NameSoil microbial communities from Populus trichocarpa stands in riparian zone in the Pacific Northwest, United States - 17_S
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5694
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (55.56%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Soil And Ectomycorrhiza Microbial Communities From Populus Trichocarpa Stands In Riparian Zones In The Pacific Northwest, United States

Source Dataset Sampling Location
Location NameUSA: Washington
CoordinatesLat. (o)46.6992Long. (o)-120.899Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F032772Metagenome / Metatranscriptome179Y
F080363Metagenome / Metatranscriptome115N

Sequences

Protein IDFamilyRBSSequence
Ga0307503_100012123F032772GGAGVTPLDQLRLRLPAHEFDRLMQAAKPVAEPARDAMLKDIAAELGQHEVVGPGFLHRIISEVQRRYDVADQRRTTAQKREDPGWM
Ga0307503_100012124F080363N/AMNATLTKQFERFAECCLELARSAETTERRARFIQMAHEYRLATLLTSEEPSSGPKGRRLLPAAESPLLIAAEAPASRAQTRPQPRLFARSAAPRHPGFKAQMFDADKQNRDLSNRDQGGNAEGPDT
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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