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 Ga0179596_10111890

Scaffold Ga0179596_10111890


Overview

Basic Information
Taxon OID3300021086 Open in IMG/M
Scaffold IDGa0179596_10111890 Open in IMG/M
Source Dataset NameVadose zone soil fungal communities from Angelo Coast Range Reserve, California, USA - CZODoug1_1_08_16fungal (Illumina Assembly)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1255
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae(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)39.7291Long. (o)-123.6419Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F008956Metagenome / Metatranscriptome325Y
F024640Metagenome / Metatranscriptome205Y
F040663Metagenome / Metatranscriptome161Y

Sequences

Protein IDFamilyRBSSequence
Ga0179596_101118903F008956AGGMSTPRHAWTPEEDGLLRSMGAAGESTTAIATLLKHTPEAVRRRARLLKIKLARSQPGLKAKGK
Ga0179596_101118904F040663AGGMAKSRNGRFSLKEDRQLIQMAAAPATLEEAAAIFRTSVETIERKAERLGIKLKKKRPKLGLKAKK
Ga0179596_101118905F024640N/AMAESALKVGDRVRLIAETLAWRAEITLQGQIGEIIERREDGRITIRFDNGRLLMAREPESFELVVESGAEGEGAEVDGKE
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