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_10003388

Scaffold Ga0307507_10003388


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10003388 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)31114
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (50.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium(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?
F000746Metagenome908Y
F050927Metagenome144Y
F067281Metagenome125Y
F074608Metagenome119Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100033881F067281AGGMLGIYCTYTSSRFNFRFIKPVTLKLHNYNSLEKTIIGKVEKHFIKHLNVAVLNTASTLTRMSSVYAPYIIGLSLN
Ga0307507_100033882F050927N/AMPEYPVTRKEGIAYFIYKATPLLSIDADKETVREVIKQYILKVYNTHARYILYLYL
Ga0307507_100033885F074608N/AMEHRLVIKNSDSLYAIYLTILSKVLVRRVVLNFHIYKELFNLINLTLKVFYAFILN
Ga0307507_100033887F000746N/AMIITRLIKYIMAVVGDTAESTISVNYKAIIEVLIEVHFKVITRRSAIFIKSQITS

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