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 Ga0209701_10004002

Scaffold Ga0209701_10004002


Overview

Basic Information
Taxon OID3300027862 Open in IMG/M
Scaffold IDGa0209701_10004002 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - CZOApr15con2H3.8 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)9679
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (80.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

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?
F000042Metagenome / Metatranscriptome3762Y
F005764Metagenome / Metatranscriptome391Y

Sequences

Protein IDFamilyRBSSequence
Ga0209701_100040021F000042AGGAGMNNTKFIVKIDRGGTQASEYVQRVDLTRIRTTSNRKLALIMGRFTAEDAVQSLQNSRCRPELVSVRVTA
Ga0209701_100040022F005764GAGGMEPVHYSRQAFLRGVLILGLSLSVFAQIPAAPDASGFPSSRKVPDFPLTALPPVLISHPAFEFRGIRIGDGMKEAERKFLALKVPSRFSKPGLCGSDGISRIETCTDVLDTGEYVNMTMLDQRVAQIYVSTDRRTQGNTYSSYVLALTTKYGSPDKRETKYYHNGVETGSSGELLRWLNGDQYMEGSESERTISIGSRALDANIAERKHTYEPN
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