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_10001654

Scaffold Ga0307507_10001654


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10001654 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)49350
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (38.89%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta(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?
F003725Metagenome471Y
F017572Metagenome240Y
F050927Metagenome144Y
F067281Metagenome125Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000165411F017572N/AMLELAHGNVKPLVYKVDTYKGQEEDKWQVLKIISYKDVDNKTWYKVK
Ga0307507_1000165416F003725AGTAGMETLINLYINLTEIAKLVQQRIKRYYNAKRYKGLDLKEGDKVWLLHKNFKS
Ga0307507_1000165417F017572N/AMLEPVYSNVKPLVYKEDMYRGQKEDKWQVLKIVSYKDVDNKI
Ga0307507_100016544F050927N/AMPEYPVTRKEGIIYFIYKATPLLSIDADKETVYKVIKQYMLKVCNTHARYILYLCLQ
Ga0307507_100016545F067281AGGMLGIYCTYASNRFNFRFIKLVTLKLHNYNSLEKTIIGKVEKHFIKCLNIVVLNTASTLIRMSSVYAPHIIGLSLN
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