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 Ga0207644_10010310

Scaffold Ga0207644_10010310


Overview

Basic Information
Taxon OID3300025931 Open in IMG/M
Scaffold IDGa0207644_10010310 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS S7-3 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6158
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (44.44%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Soil → 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?
F006269Metagenome / Metatranscriptome377Y
F008693Metagenome / Metatranscriptome329Y
F016613Metagenome / Metatranscriptome246Y
F040272Metagenome162Y

Sequences

Protein IDFamilyRBSSequence
Ga0207644_100103102F040272GAGGMRTALRQASAIAAVGGQRSLRQTLGLAHQIYNALVRLEPDGRARRIRLIDAIFGSVPRDADHKDGGR
Ga0207644_100103103F006269N/AMSPLTEFFCWWVIDERTGERRLTRFKLTRVDAQRAFPGAEPDLQTREVRNLPDVDELPPHSRPDGDWQ
Ga0207644_100103106F016613AGGAGGMSLLQQIIDSSLVSRQRLMQSREFYAPTERKAPARVALARWTSRTLEQPALGVARELAGLSEPELDELEAEFRRFPIRQPPQWLRYAVVVGIVLMALAGLGLGLQALMNLGETAARTLQAVSVACLLIGLVPLGAALISALGALQLDLSYGTVGLYVGKLDEQHPWLYDARSLTRQVIAEEYRQRTLNERGLLRGADYIMMRELVQAQEALARVRAARSVAEQFQSLPVAAQATVHEPRLVRVGAARDHHESLSAETSRAQAGRPGQ
Ga0207644_100103108F008693AGGLVEYEGMQGPRKFVEYWRWRYRDPKTGRICRTLFQLSEREAAELPEAERIEGSMLLREVDADDFPETGPEVHRFTPESQQSP
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