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 Ga0070708_100046587

Scaffold Ga0070708_100046587


Overview

Basic Information
Taxon OID3300005445 Open in IMG/M
Scaffold IDGa0070708_100046587 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-3 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3826
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (66.67%)
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?
F006299Metagenome / Metatranscriptome376Y
F010312Metagenome305N
F014110Metagenome / Metatranscriptome265Y
F075877Metagenome118N

Sequences

Protein IDFamilyRBSSequence
Ga0070708_1000465871F006299GAGLTVSVQVISKETPEVIEFNQLKSRTREEALKELVSEFGVVYVTALTRQGCSGCETQKPLFKTLAEKVGRENPEKVLFRSFHMNSMDGDKQESWNSKRIFGHAAYPTYMIHVKSHVGPLEIYRSVYPPMEELEKRIKESFELADFYKTEAKMPRD*
Ga0070708_1000465872F014110AGGAVDLAKLPGKTSAAVDFLREHVMRVKGRISAKGTQIQVEGLKHKEVKLLLHKFLRHNGLDDHRVLSQSGVLEIVPSQTITHPKLDEATTPPASATLPYLFPGTPAPGAADRRRRKKS*
Ga0070708_1000465874F010312N/AMKCLPAYGRFRLEMASPKKELMMLRVFRLTLPAALLVSLTWMTLFTDAARQAVINSLGANANIIIFILGLFLVVGLYWVMGVYERKILYENHRGRPAF*
Ga0070708_1000465876F075877N/AASLRANPKPQEITVADQDGYLKGQLVFRLGIGNGDGFDVFDSGEQERVLHRIENRGSFNTLDLAIQLHYSVNDGRQHRVHEDHYILRLVFQPGRVEVLVHHLKGVRRVEPDELIRLMVQELNVELARDRYGQVELDAVNIT*
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