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 Ga0163161_10027432

Scaffold Ga0163161_10027432


Overview

Basic Information
Taxon OID3300017792 Open in IMG/M
Scaffold IDGa0163161_10027432 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - S4-5 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4039
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (87.50%)
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 → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Epiphytes → Unclassified → Switchgrass Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameUSA: Michigan
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F022438Metagenome / Metatranscriptome214Y
F092753Metagenome / Metatranscriptome107Y

Sequences

Protein IDFamilyRBSSequence
Ga0163161_100274321F022438N/ATYWGNVAYWWNVEFWNESVQRAATYEDAFTGTPETFPPTALSFDRSTGHANSSPTEYAVQAIAETRFRLAGKVLEENLGNALIKTERPWRTGWLALDLYRDGWTIPKVAGTIRVFSAPGQSASIMRFLTISVHGPNAAAPRRFRVSSNASDWQGQADERGTSNQVSVCVPARGYADVRIDAPHYSPIYGDPRTEESFGSYARSGGVLITGIALADETSPC
Ga0163161_100274327F092753GGAGVDNRPLRVGLVSLSAALALAATLLTGCGGSDDRTKVEASLQQYVGSFHPEDAPFPIGAGPPRLQDKSCKDRHVTIKRGQVHSFHNASVIFPEALALWSCVVTFRNSLALPVDVAVKGSEVVAVFPGASPDEPRQPPATVYKGGP
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Institute for Fundamental Biomedical Research
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