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_10004203

Scaffold Ga0307507_10004203


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10004203 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)26053
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (66.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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?
F002220Metagenome581Y
F006298Metagenome376Y
F007161Metagenome356Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100042031F007161AGCAGVPYYLINRYKLDRGIVLKLGLKVPLGIPYSSTKEVEHFGFFRKEIVVVNAELSLYLNPPIFKGRVYSIGQ
Ga0307507_100042032F002220AGGMHLLKSNSIIKLSFSFSFTIRFTFTSSSSLRAKNWLSLKIIILLVYIPIIPNRVPVVVIR
Ga0307507_100042037F006298N/AMERRLVIKNSNSLYTIYLTILSEVLVRRVVLNFYIYKELFGLINLTLKIFYAFILNQEALKVGYSNLIISNVSYTLMKLVICLFLLIKGVSS
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