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 Ga0209488_10000570

Scaffold Ga0209488_10000570


Overview

Basic Information
Taxon OID3300027903 Open in IMG/M
Scaffold IDGa0209488_10000570 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - Rivendell_Oct2014_Saprolite_2_DNA_Bulk_2 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)31365
Total Scaffold Genes34 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)24 (70.59%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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

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?
F000192Metagenome / Metatranscriptome1666Y
F001701Metagenome / Metatranscriptome649Y
F007287Metagenome / Metatranscriptome354Y

Sequences

Protein IDFamilyRBSSequence
Ga0209488_1000057013F007287GGAGGMIRRSLAGFTRLQNTLLFCLLLVPFCTASDHWDYEETHTDVRDFATGGMLHVRLSVGDLRIMRGESNQIHLRYTVKSRRESHVKDAKVDFEVRGHDASIDFHAPSGGNTQFDVELEVPPTTNLDVHEKVGDLTVEDIEGDKDLTLNVGDIRVANGQTGYRLVHASTSIGDVNGNGYGETSGWLGKTLKYHGDGKYELHAHVSVGDITLQGK
Ga0209488_1000057028F000192AGGAGMAANQVVLYFDRQEDAVLFTLAASSVMSAEGPVHSSNAAVKVAEKISKASRITTEGVLNI
Ga0209488_1000057032F001701N/AMNSANSIKFLYAAYIATWLIHALYLGSLVRRYGRLRQQMKDLRK
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Institute for Fundamental Biomedical Research
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