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 Ga0070671_100026346

Scaffold Ga0070671_100026346


Overview

Basic Information
Taxon OID3300005355 Open in IMG/M
Scaffold IDGa0070671_100026346 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS S7-3 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4777
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (40.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

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

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
F051497Metagenome144Y

Sequences

Protein IDFamilyRBSSequence
Ga0070671_1000263462F008693N/AMQGPRKFVEYWRWRYRDPKTGRICRTLFQLSEREAAELPEAERIEGSMLLREVDADDFPETGPEVHRFTPESQQSP*
Ga0070671_1000263464F051497AGGAGMSLEALWYEASPYAYFVVGLASALFSNSDVGFVFSALLLTASFTILRLRRIHRSPARVESRKYSRPG*
Ga0070671_1000263465F016613AGGAGGMSLLQQIIDSSLVSRQRLMQSREFYAPTERKAPARVALARWTSRTLEQPALGVARELAGLSEPELDELEAEFRRFPIRQPPQWLRYAVVVGIVLMALAGLGLGLQALMNLGETAARTLQAVSVACLLIGLVPLGAALISALGALQLDLSYGTVGLYVGKLDEQHPWLYDARSLTRQVIAEEYRQRTLNERGLLRGADYIMMRELVQAQEALARVRAARSVAEQFQSLPVAAQATVHEPRLVRVGAARDHHESLSAETSRAQAGRPGQ*
Ga0070671_1000263468F006269N/AMSPLTEFFCWWVIDERTGERRLTRFKLTRVDAQRAFPGAEPDLQTREVRNLPDVDELPPHSRPDGDWQ*
Ga0070671_1000263469F040272AGGGGGMRTATEDEMRTALRQASAIAAVGGQRSLRQTLGLAHQIYNALVRLEPDGRARRIRLIDAIFGSVPRDADHKDGGR*
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