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_10000945

Scaffold Ga0307507_10000945


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10000945 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)64828
Total Scaffold Genes34 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)21 (61.76%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Eukaryota(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
F004318Metagenome / Metatranscriptome443Y
F027375Metagenome194Y
F035578Metagenome171Y
F037003Metagenome168Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_1000094511F037003GAGMEGIRKKQTVEGETKEYATKDKTTEETVEVKRNHLSVPAMHHLQTTPSTERARKDTL
Ga0307507_1000094516F027375N/AMVPLSDIIPLGVLNRSYRSKNRSTSSTTVIIIKTVKYPKNFVYLLMITRIALVTSLVLVLVGGKPIIKSIINSDMGSYGIGSTNNLPYRQYLGICTLWHILYLNI
Ga0307507_100009452F003725AGGMETLINLYVDLKETAKLVQERMKKYYNAKRSEGPDLKEGDKVWLLYKNFKS
Ga0307507_1000094521F035578N/AMVAGVGDTVKGIINVDYKVTVEVFVEVYLKTINRRNATFIRS
Ga0307507_1000094525F004318N/AMSRVLSKLRLSLVSYIVSYLGLGLVLGTELVLDLGLGSLNVLFIVEY
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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