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 Ga0209179_1002317

Scaffold Ga0209179_1002317


Overview

Basic Information
Taxon OID3300027512 Open in IMG/M
Scaffold IDGa0209179_1002317 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - Rivendell_Oct2014_Saprolite_2_DNA_Rhizosphere_2 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2551
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
Not Available(Source: )

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?
F006473Metagenome / Metatranscriptome372Y
F024366Metagenome / Metatranscriptome206Y

Sequences

Protein IDFamilyRBSSequence
Ga0209179_10023171F024366GAGGMISTDTNNVRPRGSWIKILLDKLRLSLRFHLRLPEIDDVRNPLIAHAAIGSPGRARLFKGARAIRRILLVFGIVVLMMGASSAFAQTQTCAIVTGGGASPTTGVNPAYLANLDGRANEGCTILITLNANGSITTTHPNPATSFDSGLDDNLIGVINNTAQTITGLQLSSATIPIFAFDNDGVCAGRPGYTFSALGPNPNCAIATDPHTYGPAGINFTVINANTG
Ga0209179_10023174F006473N/ATNPKIVIRGDAKLNFREVREVMVAIEQSGFHGVGLIAKRAGAEGK
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