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 Ga0207665_10000141

Scaffold Ga0207665_10000141


Overview

Basic Information
Taxon OID3300025939 Open in IMG/M
Scaffold IDGa0207665_10000141 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L11-2 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)48575
Total Scaffold Genes44 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)35 (79.55%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

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)42.4774Long. (o)-85.451Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001069Metagenome / Metatranscriptome787Y
F011247Metagenome293Y
F018818Metagenome / Metatranscriptome233Y
F079143Metagenome / Metatranscriptome116Y

Sequences

Protein IDFamilyRBSSequence
Ga0207665_1000014116F011247AGGMKLPELKQSWIMAGSVVLVVAGLLFAQFVIVKAAAWFKQSREHRMTRATDTVTPDRLIARCGAAIEDTTTDVYPVVKRTMRYKISSQRTALFTFTRTADEPQNWVLLSMQDSVGDVSYETPEAKISALPCLDSTK
Ga0207665_1000014141F001069GAGGMQYLPGFTVQCINPLCEARGHWLRADATTPLGSEGRCPCCGEFLRNVPPPLGPRFRMRPRSLTARPPLRPRPR
Ga0207665_100001415F079143AGGLTVLLLVSDTQYRMARYSAFLGRRVEVQYRAGDILLPASGTFVADSGRSIFLEQNLDQRGQHRHFRWEIPYQYLVRIVEKPDSGASANSIVATGTPQTTPETPIASNFEDKPLSAAAAASAGGAPGILPLSHRPKTA
Ga0207665_100001418F018818GGGGGVSKRNFYAIACSAAVGLVLLTFFLTRATAFKGSPDTSNKSWNREAVRAAYVASQLKEMDKTHCTLTLSYDLENNTDSDYRLDAGPGIVILSRLEADGSLSQQEAVRLSYPVFLPAKQHARLAIEITQPFAWPLEDNPAYIDKLREFVKQRLANVQEFVLFDQSSRTEVKLPGVWQQLQDTAQASY
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