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 Ga0207646_10006814

Scaffold Ga0207646_10006814


Overview

Basic Information
Taxon OID3300025922 Open in IMG/M
Scaffold IDGa0207646_10006814 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-2 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)11750
Total Scaffold Genes20 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)15 (75.00%)
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(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?
F006907Metagenome / Metatranscriptome362Y
F015268Metagenome / Metatranscriptome256Y
F040296Metagenome / Metatranscriptome162Y

Sequences

Protein IDFamilyRBSSequence
Ga0207646_1000681410F040296GGAGGMSSDEILRVEQFKIERFMGLGLGRYQAIRAVEDAVDWHAVETLLKTGCTLALALEISR
Ga0207646_1000681420F006907GGAGGMFRYRLHSPDGDDLGEAAAYAVMIKPDEEIHRNGGQRLRVVAVVSLDEEDESPFVGMLPVEAA
Ga0207646_100068145F015268AGGAMGRVVWSVRTGRIGEFDAPEILGGYRSANPVHEPKLGEVLHLPDGLGQWRVIDWSLADRIDAAGNVLVVESAAAANQAA
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