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 Ga0137380_10019652

Scaffold Ga0137380_10019652


Overview

Basic Information
Taxon OID3300012206 Open in IMG/M
Scaffold IDGa0137380_10019652 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from Sagehorn Ranch, Mendocino, California, USA - Sage2_L_100_16 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6202
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (66.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Archaea(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
CoordinatesLat. (o)39.5673Long. (o)-123.4758Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000611Metagenome / Metatranscriptome987Y
F002499Metagenome / Metatranscriptome553N
F019108Metagenome231N

Sequences

Protein IDFamilyRBSSequence
Ga0137380_100196521F000611AGTAGMQTNMNFPTYVFATVNSGRSTNVVEELKRNSQIDMIAPVTGRYDLVLRLKPNTPHNVYQTVKEIREIKDIRTTDTHIGFDGIQPTKKFENQMALGFSLLNCEHTTSENVIKQLSSIPGFVEASTVPGQFDIVALWQARTSEDIVK
Ga0137380_100196525F019108GGAGGLTSPQVIRKQPGLSHFPGLGHFLVVVIFTGIEIVGLSEWLALSKGGNPIMVLGQSYPILQLGAISSRVGMTGFAAIVLAVFLLVEHIITQVDATGRFASGKQLVEILTFSSLESVIWVVWLVLIPVNGILAITFFLAALFVEHHIADNVKKGLSFFKLSSTRAVFVGLLVLTISEVIGAVVWVGNQNLLAVLVGGSLLEHYIARNVGLIK*
Ga0137380_100196526F002499N/AMPGFQLAVDYWFDRVLQGMGGPIREWIYDFLNKKGISREDIPGRFEDVVKTLMERLGSSARVIAFRTVVELYKEFALPPNFEYDDSLPDRFVYLKERVVADRLHPTTPSLRFPA*
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Institute for Fundamental Biomedical Research
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