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 Ga0070705_100020037

Scaffold Ga0070705_100020037


Overview

Basic Information
Taxon OID3300005440 Open in IMG/M
Scaffold IDGa0070705_100020037 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-25-3 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3531
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria(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?
F000921Metagenome / Metatranscriptome833Y
F001944Metagenome / Metatranscriptome613Y

Sequences

Protein IDFamilyRBSSequence
Ga0070705_1000200374F000921GAGMPNMRLKLPGADRFKGNGVLAPWRTRTFLRHSCAGERLARSLSAIR*
Ga0070705_1000200375F001944AGGAMEPAVFLAALLIFVGIPAFAVIKVARIRAARTTSPSPDVTARLEALERSVQDLQHELGETQELLDFTERLLSKAREERRIGS*

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