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 Ga0058862_12881048

Scaffold Ga0058862_12881048


Overview

Basic Information
Taxon OID3300004803 Open in IMG/M
Scaffold IDGa0058862_12881048 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere and bulk soil microbial communities from Kellogg Biological Station, Michigan, USA for expression studies - soil CB-2 (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1517
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Human → Digestive System → Large Intestine → Fecal → Host-Associated → Switchgrass Rhizosphere And Bulk Soil Microbial Communities From Kellogg Biological Station, Michigan, Usa For Expression Studies

Source Dataset Sampling Location
Location NameKellogg Biological Station, Michigan, USA
CoordinatesLat. (o)42.3912Long. (o)-85.383786Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004935Metagenome / Metatranscriptome418Y
F096141Metagenome / Metatranscriptome105Y

Sequences

Protein IDFamilyRBSSequence
Ga0058862_128810483F096141GAGGMCKGVPRRPKVSSSQRFGALQRFYITAAVFTAVSLVTPYNEQIFAASPDAAEGPEKTVPQGKDPPGNDNEDHSNPTTEHKGVIKPPQTGDEGIYTQAPNPNAGTEEEVIPPPGTPESQQPKVEPR*
Ga0058862_128810484F004935GGAMSRPLKVQIVERARELVADEQNWCQRHLAQDVNGASVSPTSTAAVKRCGLGAVIAAAYQLTHDYDAAHRLGHEALRPHYSPATLIYLNDIRGHSAVLALFDEVIAAR*
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