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 Ga0207684_10000675

Scaffold Ga0207684_10000675


Overview

Basic Information
Taxon OID3300025910 Open in IMG/M
Scaffold IDGa0207684_10000675 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-1 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)40506
Total Scaffold Genes52 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)47 (90.38%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn, Switchgrass And Miscanthus 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?
F001128Metagenome / Metatranscriptome769Y
F025102Metagenome / Metatranscriptome203Y
F041399Metagenome / Metatranscriptome160Y

Sequences

Protein IDFamilyRBSSequence
Ga0207684_1000067533F025102AGGAGMKRTAEIVLTALALAGMYCAIPKSFAPVENPGIGTEQMVLVADGSDPMPLCRGKACK
Ga0207684_1000067535F001128AGGMRPTPKQAGTGANWPPEEGQIITFSSLSGLTKGIVKEVRWGLVWRDFILDDGRVIPEHKILDLPEPPAWRKAEEVTQDEREAWERRLVSMAEAGLDPRDREQSFWAELNQYLAYTYLRFKQTGFKPPDPE
Ga0207684_1000067538F041399GGAMAKVIEFYARDLLPKKVRSAPRDRRGEVIEFPKDKAAVASKTPKIPERDEGNPFAASWPGCF
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