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 Ga0070699_100002424

Scaffold Ga0070699_100002424


Overview

Basic Information
Taxon OID3300005518 Open in IMG/M
Scaffold IDGa0070699_100002424 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K1-50-3 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)16731
Total Scaffold Genes25 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)20 (80.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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

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?
F000150Metagenome / Metatranscriptome1910Y
F001404Metagenome / Metatranscriptome704Y
F032025Metagenome / Metatranscriptome181Y

Sequences

Protein IDFamilyRBSSequence
Ga0070699_10000242414F000150GGAGMSITPYLDDLDVDPEAKRALGVALEKTRVSLGLADDFANGIIAKRIVELAKAGERNPDLLCEGAIEQLREHLYGD*
Ga0070699_10000242416F001404GGAGMRKTTLFAVTTALLATGFGVWAASPARVSPSIGQGIEPFQLMVNAKDLSRAELVDYTFVFH*
Ga0070699_10000242420F032025AGGVITVPRTKAAVLKRFQAATAQLHVPIPDESAMNGILKPEIRNALKIGWTVARGILELAIMVYVLGALLDPADTIIVAVLGIIYATIRSAALFQYFTITQMAWASDRQSLEQKRLEEDPNVDSEIAHTDASMSRILINSYIAGAFIALQYLVCLIYIFSNL*
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