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 Ga0209180_10008114

Scaffold Ga0209180_10008114


Overview

Basic Information
Taxon OID3300027846 Open in IMG/M
Scaffold IDGa0209180_10008114 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - CZOApr15con2H2.8 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5378
Total Scaffold Genes13 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (84.62%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria(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?
F011570Metagenome / Metatranscriptome289Y
F086743Metagenome110N

Sequences

Protein IDFamilyRBSSequence
Ga0209180_1000811410F086743N/AVWPPRWTFSIHPRGAGEILVGEEGVLESVKRMSERLALTMKYKGRERFGSLQWDTPPSLDAVERVLLANLGKPIKTIGDLDV
Ga0209180_100081146F011570AGGAGGMGKSKVVSRGATVAFWWFMVVSQHPGMVLTVTTQGPFGTQAQCEWGRQQVAVTTGLRGGQGVGWGSTQCWNDRP

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