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 Ga0070703_10004670

Scaffold Ga0070703_10004670


Overview

Basic Information
Taxon OID3300005406 Open in IMG/M
Scaffold IDGa0070703_10004670 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-25-1 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3831
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium(Source: UniRef50)

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?
F000512Metagenome / Metatranscriptome1064Y
F001367Metagenome / Metatranscriptome713Y

Sequences

Protein IDFamilyRBSSequence
Ga0070703_100046701F001367GGAMPVVGSSAYNSAGQITSLVRSLLNDAQGNLFTDTVLLPYANSAYRKLQRALGNAGGGGFIQDDALLVVPAVAQADTSLQVSVTDATAPPNQLPTDLLVPIKIWER
Ga0070703_100046703F000512GGCGGMINILRERHECPEAIERWLTLAGGKNWFGLPNYRACWGWNRLAWIGGKFEEHDPATGSLLREVVELRQEPKYPAVNRWHIERWVPPEVYGSPRTWYAQTVERENGVSIPALGPYPSRGEYEHCFTLEGPSGEFLQLTPTVAEHVARAIEFSRHAPRSLKRRSIDDREQRDDRAYDAWAYDKLDDAVPAFHKQPFVRVF*
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