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 Ga0207684_10000141

Scaffold Ga0207684_10000141


Overview

Basic Information
Taxon OID3300025910 Open in IMG/M
Scaffold IDGa0207684_10000141 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-1 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)129376
Total Scaffold Genes151 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)79 (52.32%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameUSA: Michigan: Kellogg Biological Station
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000443Metagenome / Metatranscriptome1132Y
F001373Metagenome / Metatranscriptome712Y
F005160Metagenome / Metatranscriptome410Y
F023082Metagenome211Y
F077113Metagenome117Y

Sequences

Protein IDFamilyRBSSequence
Ga0207684_10000141150F001373AGGAGGMSAEDAATKEELLLELRGKNTTRTIKEFSAAGIRLENNLEGEVKGIYNATYYATIDALVKPDGTIDYETRQIHTTDDGDTVLVDYKGKSIRESPTHNKFVGENTFQTSSKKLAWLNGTRSRHEGEYNPVTGEQNFRVYAKR
Ga0207684_1000014123F023082GGAVRITARRPADVARQVEASFRQGERAFVIARIDGGGMLDRERLGAARYTAGLQSKVELEAEAPIALAIAR
Ga0207684_100001415F005160N/AMLRLVGFAVAAALAMAGVQPVVSALTGEVGMRWAFGLTVPAVLTAALVFGAGWLVNRGDTVQPPWYSAWLLLPGSFLLAGAAAMCIFGALVEFRLIPWTMWVLLVSGGLLWTAALVLVRSHSH
Ga0207684_1000014174F077113N/AMPRQDAQGRWISDDGAQYWDGTAWRPTGAQPARRGISAVPAVLIGCGFALVIVLILGIGLTVFIVTNADFQRGFCNGYTSSDQNLTCPFHPSSP
Ga0207684_100001418F000443N/AMSAQTAGSISANLSWSKVDVLTPFERLSAEIQVRGGRLRETINDPEPLFHLRNVSAEPLVPGAVPLSGVPEGLFNKNFIGGIRTVDPEPPPADMVAEMMRRYVMFQATTFMVTGAAEFPKATEPSMHTEILMKARFFPMLDVTVTMFGVQGKSWTQPNIWVNRDLMLAVFLG
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