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_10000059

Scaffold Ga0307507_10000059


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000059 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)164159
Total Scaffold Genes52 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)33 (63.46%)
Novel Protein Genes8 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)7 (87.50%)
Associated Families8

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?
F002220Metagenome581Y
F002555Metagenome548Y
F003457Metagenome485Y
F006298Metagenome376Y
F009949Metagenome310Y
F021494Metagenome218Y
F050242Metagenome145Y
F067329Metagenome / Metatranscriptome125Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000005917F021494GAGVSYIPTSLSKSKSIIASGSSPVLAGWLYTPYKLAACVIFTALNLILNYPGLELAIAIYRGLPTRRPLPCVLYIPYIPIRSGNIARRHF
Ga0307507_1000005918F009949GGAMGNTIGGKYLRALRGPNKGRKYNGNTLKDRNNRTKRLALLGGYSSG
Ga0307507_1000005926F002555AGTAGLEILEIFKDKDKEEGDGVTDALSTMLRLLGEESAEAS
Ga0307507_1000005938F050242GGAMRLCVPTSTAEDVSHFSLGSREVVRIDFKLVLQLKLPIIKCRVSSVYKQ
Ga0307507_1000005944F006298N/AMERRLVIKNSNSLYTIYLTILSKVLVRRVVLNFHIYKELFGLINLTLKIFYAFILNQEALEVGYSNLIISNVSCTLTKLIICLLSLIKGVFS
Ga0307507_1000005945F002220AGGAVHLLKSNGIIKLSFSFSFIIRFTFTNSSSLRAKNWLSPKIIILLVYMPTILNGVPMVIIRKHRLNIKVVIKSFSL
Ga0307507_100000595F067329AGGVLGAGIADVSGIANITDIADVADIVTDIADIADIVNIADIAVEIGKCV
Ga0307507_1000005951F003457GGCGGVCFFSAKAFLISAIIIAKIICSGFLASYASGVAPIIWMSKVLSELRLFLVSYIVSYLGLGLVSVIKLVLDLGLGSLSILFIVEY
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