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 Ga0068869_100004364

Scaffold Ga0068869_100004364


Overview

Basic Information
Taxon OID3300005334 Open in IMG/M
Scaffold IDGa0068869_100004364 Open in IMG/M
Source Dataset NameMiscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS Miscanthus M5-2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8783
Total Scaffold Genes13 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (69.23%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → Nitrospirales → Nitrospiraceae → Nitrospira(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Epiphytes → Unclassified → 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?
F041481Metagenome160N
F077482Metagenome117N

Sequences

Protein IDFamilyRBSSequence
Ga0068869_1000043644F077482N/AMPKWMNWLPHQWHASTLVLPIVILAYPSLRCGEAYELLLDRELSALDQFYAGWGTVIRMDENSEGQGPKDTMQDNEYRPAGGIKKFAEPTIQLRGTAEKIGLDRQSLSSFIGTKFLNEFAFLQSDFVFEKTYQTWEIGIFECETWTVGVNYPIAFHVQCAGGSMDEPREWHYASLGYGPADKTSETVRGTLDAIIQEYATFVRKASGKD*
Ga0068869_1000043645F041481GGAMMCGPFRHVSASEREHCLDPVPPAISSQDLSYCLKVQRQTIMRCRVSFLVVFSITLLSLAMPAFPATAPSTYSGYTGTDPKPIPSPPPVLGPMNSILTDPTFGSRILRVTDSKTAGGASLISEDAGYFRTWNADSTAIKLMTTTGKSWWVEFDPVNFKVGDGSSRPTLHQLNFNYKWEWSAVDPDVLYFLNGNQLSKYSKSTEVVTHLGGPPSGEPVTYHVAVVGQDSWVCSAAGAGAQGTYTKLFCLNPNSPSQSKFIDIANRTINGISQVDSNWPTGQKIGIHSIFGSAGGTWLGVIFHGQSWGKGVAVLNLATNSWSLATGVLHQSGHPCLGHGRYVNGSGSTNGKDSRGAILRDPDHLMDSSRQKFLMQPELTIGWHDAEHSSWFNASTNPDAPILFSRYNITKPPSPLPWYGEIIMAATDGSNTVWRFAHNHNGGGSFYGQSFAQISNDGRWALFSSYWDGTLGASTNSDSGMSTRLDTFIVELVPAERSLNERVK*
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