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_10016617

Scaffold Ga0209590_10016617


Overview

Basic Information
Taxon OID3300027882 Open in IMG/M
Scaffold IDGa0209590_10016617 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)3614
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (75.00%)
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?
F001681Metagenome / Metatranscriptome652Y
F001901Metagenome / Metatranscriptome620Y
F001906Metagenome / Metatranscriptome619Y

Sequences

Protein IDFamilyRBSSequence
Ga0209590_100166172F001681N/AMKTLRLQRDPDGFFLWHPDYAPWIVGRHSLGANPNDRAFFDPNTSEIVWSSRDGMKDYEMDELAARHLAGELVEMPQFESEREVEAWFLERGFKVEWI
Ga0209590_100166173F001901AGGAMMTRRKEPWGQQRGWIVPADGSPPQELPQQMVGHKLISWPGTMPEKEPAKYHASKDYYHRHVLNPEGVSVYVPEGRDAESLPESIKNEIRRQLKGQS
Ga0209590_100166174F001906AGGAMIIEPNDFQSRLRALVGLQGAVLTDEELSHTAERYPRCRGKEHWDVREYVRRFGVGAREYRVVRGSSIEDVYRSAERVRAAAVGTALNELESQERSGEAPGGSVKVLGDGRAQTDSAWEFGRNGPQD
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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