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 Ga0307510_10000002

Scaffold Ga0307510_10000002


Overview

Basic Information
Taxon OID3300033180 Open in IMG/M
Scaffold IDGa0307510_10000002 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 12_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)801565
Total Scaffold Genes672 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)482 (71.73%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
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: Oregon
CoordinatesLat. (o)45.654Long. (o)-122.839Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002655Metagenome / Metatranscriptome539Y
F007865Metagenome / Metatranscriptome343Y
F060082Metagenome133Y
F079690Metagenome / Metatranscriptome115Y

Sequences

Protein IDFamilyRBSSequence
Ga0307510_10000002255F060082GGAGGMELASLRASKARYTLVLSLLSGLSFFQHASFATAAVDADDALGLCQVETIPKDIRDTLERRFYGWKVQDSSNLLPRVRQRWATIAPLACPGIATGHFEESRSVAYALLLVPVDRSANGYKFVVFSAPSGQSFYGFKMLDQAPLNASSFFIHSVAIERVFDSAMKKQFRPKANDGVVLFYADEKIPTQNVFYWKGDSYDHAQVDYN
Ga0307510_10000002281F079690N/AMAEDPSARRARYFLYLLGGVFVALGFALDRVPAMAAVTPDLAGRVSAGIGALILAVGRFGSDRLVRRCEMLLTGWF
Ga0307510_10000002478F007865GGAMTTADRASIWIETQYCASVAAALQARAEYFELLEDAMTSPARLVRAFGAWRKHVTQTEVLGGLVGTA
Ga0307510_1000000273F002655GGAGMKIENLSKDLDTAAMTEVTGGTALTGQVVPTNVQSNALEQAFNIASNGPVAIANDGNQSNESDQDSFVPVGSIFLSPALSKLIG
Ga0307510_1000000276F002655GGAGMKIENLSKDLDTEAMTEVTGGTALTGQVVPTNVQSNELLQSFNVASHGPVAIGNSADQSNYSSQDSIVPVGSLFVGSDFFRRES
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Institute for Fundamental Biomedical Research
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