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 Ga0268265_10509248

Scaffold Ga0268265_10509248


Overview

Basic Information
Taxon OID3300028380 Open in IMG/M
Scaffold IDGa0268265_10509248 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS Switchgrass S5-2 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1136
Total Scaffold Genes2 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria(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, Kellogg Biological Station
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F018279Metagenome / Metatranscriptome236Y
F080332Metagenome / Metatranscriptome115N

Sequences

Protein IDFamilyRBSSequence
Ga0268265_105092481F018279GAGVLVVVAAALAAVATVQAGDGKEQIRFNAADQAAAKAVVIRPADLGSGWVGGPAKPDLSAGPSCPNYHPKVSDLVLTGAARTTFQRSGFEFDSQSGVLKTRRMVALDWRRSVLAPGVVPCLRQSIGKGLGTNAKVVSFKKLPFPQLATYAALFRGVISVQAQGKTVRVLTDLVLVGRSRTELTLTIVGPASAKSAISAAER
Ga0268265_105092482F080332GGGGGVNTAFFANRRALLASITLAGALTVALLSLASAAQGGSRAGALYPRSTKLTDDKVAHWAVLMRRTVVRAKPGLASRIVTTLPAGTTDGTQNDVLVLSR
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