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_100057208

Scaffold Ga0070705_100057208


Overview

Basic Information
Taxon OID3300005440 Open in IMG/M
Scaffold IDGa0070705_100057208 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)2300
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (57.14%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes → unclassified Gemmatimonadetes → Gemmatimonadetes bacterium(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?
F038168Metagenome166Y
F075926Metagenome118Y

Sequences

Protein IDFamilyRBSSequence
Ga0070705_1000572083F038168GGCGGMPNRQKLTEPEIHAIIVSDAKIRLGCKDFEPDFTLHRTDVDPTRYPSANWDVQSASNADGWAPDCAQAFKEAVAQARRKFDIAWPLWD*
Ga0070705_1000572085F075926AGGAGGMADKVPCPICGAASDGGYNIGDSTVFKCPQCGGYRLAGTVITLFENSRLKKPDPKAFLDLVRRKRGNSREYPVIIPADLGG*

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