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_10000072

Scaffold Ga0307507_10000072


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000072 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)158056
Total Scaffold Genes54 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)20 (37.04%)
Novel Protein Genes8 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (50.00%)
Associated Families7

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
F002555Metagenome548Y
F002793Metagenome529Y
F029000Metagenome189Y
F050927Metagenome144Y
F062472Metagenome130Y
F067329Metagenome / Metatranscriptome125Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000007214F002793N/AMDIIPLVDNLEILGIFKDKDKEEGDSVTDALSIIL
Ga0307507_1000007218F067329AGGVLRAGIADVSGIANITDIADVADIVTDIADIADIVNIADIAVETGKCV
Ga0307507_1000007234F029000N/AMRYIIPMDLINAILVAKYFIKYIFKLYGLPNLIISNYRSQFVSDF
Ga0307507_1000007237F062472N/ALPIYSVEVEGLVFPSKMVKGPGDPAIVLNKALVEVIEI
Ga0307507_1000007242F000630GAGMGVKGIEANLGKRNLSRGIVNAIGGKHLRALRRPNKGRKYNSNTFKNRDNRTKRLALLGRYPSRQPKI
Ga0307507_1000007245F050927AGTAGMPEYLATRKEGIAHFIYKATPLLSIDADKETVHKVIKQYISKVSNAYARYMRYLYL
Ga0307507_1000007246F029000N/AMIPMDLINIILVAECFIKHVFKLHRLPNLIISNYRSQFVLDF
Ga0307507_1000007251F002555GGAVDNLEILGIFKDKDKEEGDGVMDALSIMLQLLKEELAEVS
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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