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 Ga0307515_10003678

Scaffold Ga0307515_10003678


Overview

Basic Information
Taxon OID3300028794 Open in IMG/M
Scaffold IDGa0307515_10003678 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 17_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)32215
Total Scaffold Genes22 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)17 (77.27%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina → leotiomyceta → dothideomyceta → Dothideomycetes → Pleosporomycetidae(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Roots → Unclassified → Unclassified → Ectomycorrhiza → Soil And Ectomycorrhiza Microbial Communities From Populus Trichocarpa Stands In Riparian Zones In The Pacific Northwest, United States

Source Dataset Sampling Location
Location NameUSA: Washington
CoordinatesLat. (o)46.6992Long. (o)-120.899Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000247Metagenome1464Y
F007022Metagenome359Y
F007161Metagenome356Y
F008599Metagenome330Y
F094694Metagenome105Y

Sequences

Protein IDFamilyRBSSequence
Ga0307515_100036781F008599AGCAGMGLLYRKKEYPYLLVTILGDPIAYREGIINLKIGPI
Ga0307515_100036782F000247AGGVHTYIIYIALNYKRTPYTEVAYTSCFASSLNISAGKTLVPSFSVPFTYLSAGKKPYYTSSLSLNRSIGPTSIGL
Ga0307515_100036785F094694AGGVVSVFFKVGLVYIVYKVLSEYIYLLTLTYIVAIINFIGKSEY
Ga0307515_100036786F007022N/ALAICYNYNKEGYFALFCPKLKDIGDIKEIKEGKTSNKLGKEEP
Ga0307515_100036787F007161N/AVLYYFINKYKLDRGLVLKLGLKVSLGVPSGLTKEVEYFSFFRKEMVIINAELFLYLNPLILKGRVYSIK
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