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 Ga0307514_10000087

Scaffold Ga0307514_10000087


Overview

Basic Information
Taxon OID3300031649 Open in IMG/M
Scaffold IDGa0307514_10000087 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 16_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)255488
Total Scaffold Genes272 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)183 (67.28%)
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: Washington
CoordinatesLat. (o)46.6253Long. (o)-120.532Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F008531Metagenome332Y
F036505Metagenome169Y
F038958Metagenome164Y
F048690Metagenome147Y
F080709Metagenome / Metatranscriptome114Y
F088003Metagenome / Metatranscriptome109Y

Sequences

Protein IDFamilyRBSSequence
Ga0307514_10000087169F008531GAGMSSLGVKGRIKSWEAHEHDQQFGENESIDIGKSQRLRKEGNARINKVSAMRPGLAKIIEKVCIS
Ga0307514_10000087174F048690GAGMLQVMDNIEVSCVFYVKVSTFTHLEQSKIGLLTVNKSGIVTRTVQHDMIVSVCFMLYPGDYLRQTSADVRSLELHPINI
Ga0307514_1000008753F088003N/AMMAFIRMVRAIERHDVVISGIFGDEFRDKGPREWTKQALKTLQEATESYMVEVIAEASF
Ga0307514_1000008760F080709N/AMVELSTSKRDNRGDGENHHEKLGLEKFSCASQLTIPDTAGTLPDPAGNITDTVSSKPNQVSRTPDVS
Ga0307514_1000008765F038958N/AMTDVIANLFVDVHLFKAKLTLFVDRNCFLIASTVSVYSILQILLRVLADGNTNSLRNALYDRRSSRFDIAFHGIFAETKPNMRYRFQVSW
Ga0307514_1000008766F036505GGAGMSSLGVKGRTKSWEAHERDQQFGENESTDIGKSQSLRKEGNARINKVSAMRPGLAKIIEKVCISTYYKSAETDLHIAENACCIDYADTWMSKRVY
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