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 Ga0307509_10000002

Scaffold Ga0307509_10000002


Overview

Basic Information
Taxon OID3300031507 Open in IMG/M
Scaffold IDGa0307509_10000002 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 10_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)607551
Total Scaffold Genes515 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)400 (77.67%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria(Source: IMG/M)

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)46.0356Long. (o)-122.86Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F012812Metagenome / Metatranscriptome277Y
F030880Metagenome / Metatranscriptome184Y
F047142Metagenome150Y
F065129Metagenome128Y

Sequences

Protein IDFamilyRBSSequence
Ga0307509_10000002266F012812GGAGMTIPPQVLLDTSIAQLQTLASFLAEEMGEYRQRTVVATPEARACKEILLTISVLIPKLQAARYVVADDATRLGRCVDCEDG
Ga0307509_10000002477F030880GGAGMMALPRWLKRQNQCSDSLLKKTDMSEAYQYDDGCRLLIFRYADEECQALMAHYSGIRFNQVRLTFLPLRALQDVPDREEIEMTFNISGMPFDLTRHGFAHPSWWRMVPPSGITHRCHTEGFGRAWRAIRTRTGFRLQGAHYIDGMTKLTVALRPLSHARWLARGVTPLRNP
Ga0307509_1000000273F065129AGGVVRFNRKDGMSGISTGATFEECADKLNDFIMTLEEYSHTVLAHALRAHLSGLLQALLAHGQWSSTEVETFLEELRDETLPE
Ga0307509_1000000296F047142GGAGLPRRAYTGGPTLLAVGACVLFLLISATLCAPVSATGTQVKLHGSSSLGGFVKDPALARLLGETLFRDTVAVMSDPSTAHAAAAPVAGATDQFRDNSAAGQVARTVLAHQSLDKYLWLIQQAYTDTLWKGGDRARIEQHFPLIWRTSIMFYEATLNASPHRVRVCIPAGDGDSFDCRDEIERAKIIPIPAQAPLLQLRNQPNIG
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