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_10007858

Scaffold Ga0209180_10007858


Overview

Basic Information
Taxon OID3300027846 Open in IMG/M
Scaffold IDGa0209180_10007858 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)5453
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (66.67%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(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?
F000232Metagenome / Metatranscriptome1513Y
F008569Metagenome / Metatranscriptome331Y
F009565Metagenome / Metatranscriptome316Y
F031940Metagenome / Metatranscriptome181Y

Sequences

Protein IDFamilyRBSSequence
Ga0209180_100078581F009565N/ALVYLKLMEKYQNTDPFKYILYSAKIGEQTPAMATGK
Ga0209180_1000785810F031940GGAMRMPFCILNVLGDVLDDGELYFVEAAQSLDAARARVESLAESLPGEYIIYDVATGERVSITAVGKLH
Ga0209180_100078588F008569GGAMDSTRRACPKTIVKITCPLCGKRFDQDAKDLLQIGSQLQNLVFGRPVRSVQVDYDCPYCSDRGILVSLLHTDLSWDELSKEHVQTAVCDNGFCSQRGVFQELKPSRVVLGSLNPVELRTGNYVRNYRAFP
Ga0209180_100078589F000232N/AMKHPKQTKRAPPTRPSALAVPSYHRILVKHGLIEKTLSIPDAYEMFLKVGADPEVQILRRKVAHGHRMKHVPALYLATAMALQGMTKQELEALKLRMEEKRV

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