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 Ga0268266_10000548

Scaffold Ga0268266_10000548


Overview

Basic Information
Taxon OID3300028379 Open in IMG/M
Scaffold IDGa0268266_10000548 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS S1-3 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)52372
Total Scaffold Genes46 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)38 (82.61%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Soil → Unclassified → Switchgrass 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?
F002441Metagenome / Metatranscriptome559Y
F072616Metagenome121N

Sequences

Protein IDFamilyRBSSequence
Ga0268266_1000054826F002441GGAGMPPRTLLRLSVLLLFVLFRMDSSVAILAADEPKPTPQNTISIEVGEPVPAQKFEHAPKFWIANVTDRSGNPQPLLVLKPRGGIFLDKQPTAIVKDALEQSLKAANLLAADEASADLVLRVYVFHFGLASGSGLDFFGKVEFSTMVKNPKTGESTEVKAAGTSIANGAVRKKNLQKNVEDNIENALRDATRNFLRGAQLKEAVVAWSKASEAQPAAAPASAEAEKPPSR
Ga0268266_100005483F072616AGGAGMKLDRVLSVGAGCSSSAFLLLAIFLFALLAWQVPSVAQAGVSPGDIVETNINYQPVTGEVLRSYGNLADLNLGQNNVGRYLEVQYMKVVQKAGGGGPSKFNPGDTVQRSNGSIVITGKIIKTNGAYCEIDSSGSGFTGWSKCAEMRLVSKAPESYLRSAAAGPTAVLAIASGFPQEAGKANPVGNHGFYLLKDPVDAALTKGGFQPPVGLSPISGMNAVCTKQTPECQKAVAAIIADSATAVKSGPDGKAAFPAVLPGIYYVFGMGQHQGKPLLWNVRVQIKAGDNSVTLDERNASALETPR
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