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 Ga0307507_10000457

Scaffold Ga0307507_10000457


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000457 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 7_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)85314
Total Scaffold Genes26 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)17 (65.38%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (50.00%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina(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: Oregon
CoordinatesLat. (o)44.5508Long. (o)-123.25Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000630Metagenome971Y
F021494Metagenome218Y
F050242Metagenome145Y
F064533Metagenome128Y
F080892Metagenome114Y
F088008Metagenome / Metatranscriptome109Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000045719F080892N/AVNIIEDLLLLVASTCVDPPDIETLIINIIEDLLLLAASTYRDPLVLAQITLT
Ga0307507_100004572F021494N/AMSKSIIISGSSPNLASRLCTLYRSAANVIFAILSLILNYPGLKLTIDVHRGLPTGRPLPYIPYNPYVPCDPCVPI
Ga0307507_1000045723F088008GAGVLSHLIIKGLFRCNVIALNSLLVKIASFAVCNRANNSASVLNVITIPYLFAL
Ga0307507_100004573F000630GAGMGVKGTEAVLGKRNPSYSIVNAMGGKHLRALRRPNKGRKYNSNTLKNRNNRTKRLALLGRCPSRQPKI
Ga0307507_100004575F050242GGAMRLYVPTSTAKDVGHFSLGSREVVRINFKLILQLKLPIVECRVSSICKQ
Ga0307507_100004577F064533N/AMGSPIRLLYPRIGIGLGSSLRSAFKKSASLIAHWVFIKAKVFALELAKVEVKT
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