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_10016889

Scaffold Ga0209180_10016889


Overview

Basic Information
Taxon OID3300027846 Open in IMG/M
Scaffold IDGa0209180_10016889 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)3826
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (75.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
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, 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?
F012762Metagenome277Y
F064566Metagenome128Y
F065621Metagenome127Y

Sequences

Protein IDFamilyRBSSequence
Ga0209180_100168891F064566GAGMRLRNLSYVTLWAVNFDQEKNLYKEILGLPVAQENDNFIMFDTKGSRLAFHRLKKGSRLDRQT
Ga0209180_100168895F012762AGGALVEAKSRVQSLLPTSHEEDPSLGTLDRFPTVLHARASFSFDINPESLQKALVSALASLRTNPKSREITVADQDGYSKGQVAFKLGVGNSDGFDVLDSKEEERVLQRIENQGSLNILDLAFQLHYSLSDGRRHRVHEDHYILRLVFQPGRVEVLVHHLKGVRRVEPDELIKLIIQELNVELTRDRYAQVELEAVEIT
Ga0209180_100168898F065621GAGLKVPRILPYVVGLIVLAFALGSLTHGTPGGSLLFRSYWLLYLVYLAPLVILGAMVAVIILIGLNYRDLGAAIGYGIARRRKGRKRGSRYSTFVAMFFWALAIGVLIQTKGSIFNPIHAANSTIVKNIVGENTTPQNL
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