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 Ga0209590_10020458

Scaffold Ga0209590_10020458


Overview

Basic Information
Taxon OID3300027882 Open in IMG/M
Scaffold IDGa0209590_10020458 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - CZOApr15con1.8 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3330
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → PVC group → Candidatus Omnitrophica → unclassified Candidatus Omnitrophica → Omnitrophica bacterium RIFOXYB12_FULL_50_7(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Vadose Zone Soil → Vadose Zone Soil And Rhizosphere Microbial Communities From The Eel River Critical Zone Observatory, Northern California To Study Diel Carbon Cycling

Source Dataset Sampling Location
Location NameUSA: California, Eel River Critical Zone Observatory
CoordinatesLat. (o)39.7291Long. (o)-123.6419Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F026920Metagenome / Metatranscriptome196Y
F055851Metagenome / Metatranscriptome138Y

Sequences

Protein IDFamilyRBSSequence
Ga0209590_100204583F055851AGGAGMPSVIDTPELSEQIEHVETYDFNIERPQPRQTRPGFWRMLMHGITTYLTPTSRERHAPVCHVSRPFETPMDRLVREHPSVATYALAII
Ga0209590_100204584F026920AGCAGGMSRYDELVSIYLKAKDEYENDGRICRDFARDLMKSIFRAFDCPSGIMIGDSRRDNEGFWENAFWLMIVPNFPSSIAVKKSDGHFIVKFESDDTQFIIKDMKSENLESFYHFVFERWKEKLANYFQARPAVDEKRESGQYL
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