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 Ga0099794_10012848

Scaffold Ga0099794_10012848


Overview

Basic Information
Taxon OID3300007265 Open in IMG/M
Scaffold IDGa0099794_10012848 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_1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3628
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (50.00%)
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?
F002368Metagenome / Metatranscriptome566Y
F034123Metagenome175N
F035684Metagenome171N

Sequences

Protein IDFamilyRBSSequence
Ga0099794_100128483F034123AGGTGGMKGMKRLFDLSGKNVLRLGLLVLSTLLIVGGSVFFYDRLVYERALSVGGVITGSGSTTQTGLNPAPATILILAVSAVLISLSVFGFLREVFRGRRNRRALAKESSPTVSVSLPLKIGPPIQVPSVQRDWEESPKKEEGKH*
Ga0099794_100128484F035684GAGMGLLPEFFTLLGIEIFAAMSLLSVLLDRDIPSSAQWLFQGAAGLGMGQLVVTEGFGTSSVIDASRFWISIFYLILSVCSVAGLNVYLAAVRRKTAIASVFSGTITTPTVSVSALSVSAYLSGVDVSFTPLTIVILIVPALLVGLCAYGFLHKTFNRIGKSTGPELSPVSISAPVETPKIYESLDLKTILGKWEESQKNKDQVA*
Ga0099794_100128485F002368N/AMAIQLTPTRIKGSKYLLIPKDLARLLEIEDKSVLNLTIEESETGQRLVYSIRERTHQAAEN*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
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