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_10000412

Scaffold Ga0207646_10000412


Overview

Basic Information
Taxon OID3300025922 Open in IMG/M
Scaffold IDGa0207646_10000412 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)57275
Total Scaffold Genes61 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)25 (40.98%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Archaea(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?
F000611Metagenome / Metatranscriptome987Y
F001899Metagenome620Y
F003096Metagenome / Metatranscriptome507Y
F004341Metagenome442Y

Sequences

Protein IDFamilyRBSSequence
Ga0207646_1000041216F003096AGGCGGMTANAPTQRDEATDPLSMAGLVDSSLRPGGSISLTFSDGIVHVMLDQTGDWTITAGLSILSDRMMQLSRSLEELGFFQAAEQGGMVYHFWTSALKDHYSDRSTAEETLLRVVKSFQASSVPRYIG
Ga0207646_1000041231F004341N/AMPKQLVLYMSKEDEDSFLQYLRSTGDLVILPSTSPTSEVAPVSALPEPSEDEATRRFWLQKTTVSLALVTEYAPEKNGYVIDGFQSPVVEFLRSWTVSNVLLAGGIRADMNYLDDATQDLVRKPAEFRGWFDAMQNWIRKNFKHLTLLTYVGPGAEEFSEKGGLFH
Ga0207646_100004124F001899GAGMTCNFRFEVRPEDQIVELVAEHHTVHVCLDCLALLTVHRRIHHMKVEKVIVEMAERTPVLAEA
Ga0207646_100004128F000611N/AMNFPTYVFATVNPGRSTNVVEELKRNSQIDIIAPVTGRYDLVLRLKPNTPHNIFQTVKEIRNISDIRTTDTHTGFDGITPSKKFENQMALGFSLLNCEHTTSEQVIKQLSSIPGFVEASTVPGQFDIVALWQAKTSEEIVQNSVERVSHLNGIFKSETILAYTPVFKA
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