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 Ga0207646_10006736

Scaffold Ga0207646_10006736


Overview

Basic Information
Taxon OID3300025922 Open in IMG/M
Scaffold IDGa0207646_10006736 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-2 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)11829
Total Scaffold Genes16 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)12 (75.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Archaea(Source: UniRef50)

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?
F006078Metagenome382Y
F012855Metagenome / Metatranscriptome276Y
F014244Metagenome / Metatranscriptome264N
F058833Metagenome / Metatranscriptome134Y

Sequences

Protein IDFamilyRBSSequence
Ga0207646_1000673612F012855N/AMSLGYSPETKEKAALSGSPWEKTGYVTIKKTGQRSLVLKVLANEIVKTRQKEAQAAEPKK
Ga0207646_1000673615F006078GAGGMQALKTAGLGAVTPLEPEVKVAHQSVFYALHTRDGTCASGCGVSQTGVAEIVFGVEIVEWDLCSACLSRTGFLEYFNSLPSATPREAWEIKILLGISNETFERQNRAAQPIN
Ga0207646_1000673616F014244AGGVAFGEQTYTLLTEEARARGITIQELLRAVVIPDWFKAKYEPVPRQNPIIERRTNEEEPVVPYSFSNKLRY
Ga0207646_100067363F058833GAGLTDVAKDPGWMVNPVLFIIVVGLTVLFVAAILYQILGVR
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