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 Ga0070709_10049878

Scaffold Ga0070709_10049878


Overview

Basic Information
Taxon OID3300005434 Open in IMG/M
Scaffold IDGa0070709_10049878 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L5-1 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2619
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria 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)42.4774Long. (o)-85.451Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000590Metagenome / Metatranscriptome1005Y
F003429Metagenome / Metatranscriptome487Y
F072608Metagenome / Metatranscriptome121Y

Sequences

Protein IDFamilyRBSSequence
Ga0070709_100498784F072608N/AMRLEWWSLEHRSSAYHRAAAERARRLRAEATTRWLKEQLEDAIAQHEKIAAAIERASEPGADGASAQTETAALSSETPGQ*
Ga0070709_100498785F003429GGAGGMAQHSGLLTPEERARVAELQDLLIDRFVEHREATADGQEDRVKTLEAEIDHLLREKEEVEKWATVGSA*
Ga0070709_100498786F000590GGAGGMASILDEALEWLDRAEQAREVAGQLTDPGARKAVLQLADSFDRLARAAAAPTAARRREPAMQDEERNS*
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