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_10000769

Scaffold Ga0207684_10000769


Overview

Basic Information
Taxon OID3300025910 Open in IMG/M
Scaffold IDGa0207684_10000769 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)37239
Total Scaffold Genes39 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)34 (87.18%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(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?
F008809Metagenome / Metatranscriptome327Y
F020576Metagenome / Metatranscriptome223Y
F042457Metagenome158Y
F076445Metagenome118Y

Sequences

Protein IDFamilyRBSSequence
Ga0207684_100007692F020576GGCGGMRWIERLWRDDRRIKATPTRIAASLAEGVTRSTNVLRIRLQDEGFPHADHKRFESEACILECLLFEWFLRDIVVAVEFGRHTDTLRQVLAKRLAHDLDRTGLSPAVLLDFARLRRERFDEYRSATGVSISLQSLGTLAWRRIADTVEPSDRMTMVLAMRATAELQALRGLGKRYIVMTPPRSFFSAPSEG
Ga0207684_1000076928F008809GGAGMPTIFRYVKNEQGIETLEWIAVGALIVAVALVVYPGTLQGGLQSVINTVVGKINT
Ga0207684_100007693F042457GGAGGVGWSDLIRRRDLRVRTTAEGVAAALAEGIVESTNVLQGRLGDEGFGWTDPARAGADECLLECAIFEWFLRDIAMADGFGSRTDAIRRALAGRVSIDLQRSGVSPGRLDGLDERRRERFAEYTFRLGLSASLQPLGALAWRRISGTEEPSDRMTMLLARRASAQLAALRGIAKSYRIVELAPSPAPAPGRR
Ga0207684_100007698F076445GGAGGMAARESTESRSGRTSTTRSAPRAPRVEAPVVEVFFILGAMLVVLGFLYSIARAWPSFDPLALAMLVGIGLLLVVVCERLRTAVHELRTVTTLMRRAITDASHEPPA
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