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_10000480

Scaffold Ga0137380_10000480


Overview

Basic Information
Taxon OID3300012206 Open in IMG/M
Scaffold IDGa0137380_10000480 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)28731
Total Scaffold Genes26 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (53.85%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
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?
F000186Metagenome1702Y
F009950Metagenome310Y
F040544Metagenome161Y

Sequences

Protein IDFamilyRBSSequence
Ga0137380_1000048016F009950GAGMKITTKANGKLLKPWKIAETVFHAEETVRAEHLELVQKAHLVPEPERKKHDGRDIFQPGEVFFITKETSKGPMKVPHVHWRAIVDCGEHYRFLNPDGTLGERVTSAITVRKEIQP*
Ga0137380_1000048023F040544N/AVLNQAKQGRAKSFAGEGTVYWLIVSAILLGYLTVAVAVAAGILYFGFIIALAMVEAVLAYACWTMKKWGFLASTLSAIVVAGLAFGILYTPIGDLLLLLQLQVVLFAYRAHREPRQLKSQI*
Ga0137380_1000048026F000186N/AMEHELALKLQDDRVNYLTQVEIPVTTADFYFPLEPRPLIVFVDGPVHLKTAQMMKDEELRTLLRKRGYRFLELSYSGYSDRKRDELYREIMSGLGK*
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