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 Ga0099828_10130853

Scaffold Ga0099828_10130853


Overview

Basic Information
Taxon OID3300009089 Open in IMG/M
Scaffold IDGa0099828_10130853 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - CZOApr15con2H1.8 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2203
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(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?
F004910Metagenome / Metatranscriptome419Y
F005165Metagenome / Metatranscriptome410Y
F018733Metagenome / Metatranscriptome233Y

Sequences

Protein IDFamilyRBSSequence
Ga0099828_101308532F004910GGAGMAISQRLADPSREIKVPTSYDWQESYQAALLETNWTKMQERIQTAESEIHKRRLVLSQDHGGTQEERDALVNAMSGLRVLRMDAAAWRERQNLK*
Ga0099828_101308533F005165AGGAGMSDINNAAHPEWRQLCQAAVFELDPAKLLERIDQARGVILGRIEDGYKKPPTSEQIALLDALSTLDSLRRITERQNGYQSKTS*
Ga0099828_101308535F018733N/ALVRDGLRFKLAQRYREDPTHFLSLLKQSVDSSLAREIVSELRNEGHVEEELRGTIRFTPRGYRAFQNDPPPYSYGK*
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