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 Ga0137374_10049249

Scaffold Ga0137374_10049249


Overview

Basic Information
Taxon OID3300012204 Open in IMG/M
Scaffold IDGa0137374_10049249 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from Sagehorn Ranch, Mendocino, California, USA - Sage1_R_100_16 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4359
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (37.50%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes → unclassified Gemmatimonadetes → Gemmatimonadetes bacterium(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?
F001545Metagenome / Metatranscriptome673Y
F001681Metagenome / Metatranscriptome652Y
F001901Metagenome / Metatranscriptome620Y

Sequences

Protein IDFamilyRBSSequence
Ga0137374_100492495F001545N/AVSSTADGVIVACGPAGTHTTHPKAGHHRHTKDPSSGTSTWHERHVLSDVTLAQPLQVIAFSGATPPAWAKPHADRPSHDSFTFQALADGHVRLALVGVREGDDAVIVATKQAATAPRLFRRYAPNVLMWTVPSDKA*
Ga0137374_100492496F001681N/AMKTLRLQRDPDGFFLWHPDYAPWLVGRHSLGANPNDRAFFDPTTGEIVWSSRDGMKDYEMDELAARHLAGELVEMPQCESEREVEDWLLERGFKVEWI*
Ga0137374_100492497F001901GAGGMTRRKQPWGQQRGWIVPADGSPPQELPQQMVGHKLISWPGTMPERQPAEPAKHLASKDYYHRHVLNPEGVSVYVPEGRDAESLPESIKNEIRRQLKGQS*
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Institute for Fundamental Biomedical Research
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