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 Ga0099829_10012242

Scaffold Ga0099829_10012242


Overview

Basic Information
Taxon OID3300009038 Open in IMG/M
Scaffold IDGa0099829_10012242 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - CZOApr15con2H2.8 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5614
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (57.14%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
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?
F001899Metagenome620Y
F048188Metagenome148N
F078482Metagenome116N

Sequences

Protein IDFamilyRBSSequence
Ga0099829_100122423F078482N/AMGSVLYITRFFLPSSAENPAESLANYDGRFAIVFGLVSTFSGIFLILFVLSLRAALPKRDSVLTTAAVVFSIVASIVPVVVNLIALDARATLAGIYNNSTVTGVDKAAALVSEQVLEAEEEAIFAVYVGAPLAIGLFSGSMWKSKVFPNWLTYVGLAFVTVTGVGLLLVAVGAVVPGLYFAYLGLFVLWVLASSAYLYRSERKTATTDAR*
Ga0099829_100122425F001899GAGGLAVICGFRFEVRPEDEVVVLEADHRSVHVCLECLTLLTVHRRVHHMKVEKVIVEMAERRPVLAEP*
Ga0099829_100122426F048188AGGAMFPDSSGVPNCINPPTIAGNLTLTICTAKIHYSFGETVRFVGTLTNAGDTPVQLSTISTSAVIMDRLDSLVLREAGFNFCFNPTSCLIPAGQSMTVAIANWFTDDPISPAKLSGPYTAFAGLTACPTNGPCLGSDFLSLRIVVSVPQN*
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