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 Ga0307498_10003872

Scaffold Ga0307498_10003872


Overview

Basic Information
Taxon OID3300031170 Open in IMG/M
Scaffold IDGa0307498_10003872 Open in IMG/M
Source Dataset NameSoil microbial communities from Populus trichocarpa stands in riparian zone in the Pacific Northwest, United States - 12_S
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2536
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → 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?
F003986Metagenome / Metatranscriptome458Y
F036224Metagenome / Metatranscriptome170Y

Sequences

Protein IDFamilyRBSSequence
Ga0307498_100038722F003986N/AMPETDTTDKTGALLAIPRTVERAAGDVVHQAFERLLSSDVEVKTAADAKRLLSDHEDTEQMTDTIQRFVAVATPVARIALRGARFTRVPWVLVASSAVSIGVTVRNGVRELQAIGALLAHRFEQEAAAAPDPALVRKLTLELYLKPRRVPDVSDLGLPLARLARRWIVSGALGRNTRKKTENALDAAERLDLASVTRRTPIATGPTTST
Ga0307498_100038723F036224GAGLWLAEDAARELPNLPLEDALMLVHLYAERGSPKSEKAAMRSLARYLDESSPTLAQFSRVTQELAARVDR
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