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_10032506

Scaffold Ga0207646_10032506


Overview

Basic Information
Taxon OID3300025922 Open in IMG/M
Scaffold IDGa0207646_10032506 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)4722
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (57.14%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

Taxonomy
Not Available(Source: )

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?
F001816Metagenome / Metatranscriptome630N
F004426Metagenome438N
F013876Metagenome267Y

Sequences

Protein IDFamilyRBSSequence
Ga0207646_100325062F004426N/ALAQRRHSHPARTVHSVVDDELRVSTHKSIIKTLGRQYADAAQFFVELVVNSWMWGEATKVEIRIPESGSTIEYEEWGNGMDLIDLREFLTKGKLTDEGFSPKYKRPIRESYGMGSLAWLTVGKDLELQVHKGRFDRTITLTENLIDKHWDATDQSTWRPLRLTQAPLEHDGLRIRIRLLTKKPDPVDVKRALLARANVLALRGYGPFEVSVNGEQVKPEELRGSSLLPVNIATEYGKITGEIMIMPISKVRAGISEAGISVQQKHITCLQHQFFGLDQYRTHGLSRIQGWVNADFLRRLPGGNDFEHDSAQWRVFEKAMRGFVKNKVYKFLKQTASRRELRSIQYLNREIAERLRRSLRRNVQILSKAIVNPRVIPKINMVPGNTRKEIVLGERKHRRGKKHSREATRSVIHLKDQILAFDVAHGGDRGQAYVETDKSGVRTVYVNMDHPMWYVEAGMTPTKLRYCIRQILERSIAEEILPVSPSTPEETFSTLDALYNDALA
Ga0207646_100325066F013876AGGAGLKEDTQLMAADLLGIITTNALIAVFALFLAVATLVRIILFPPRFGPGLGPGLIETTLTFVLFALSVVSIYNLLRLRERYARLQSLAEKLGR
Ga0207646_100325067F001816N/ALPLSPDTKKEAEKRLTVLKMMEVFADKCAKSTLLNGPFGGDDRAFDRLLGPAGILTRTSLVTATMDGRVTHYGRTEAGKVYQQVLDTELNFLDPYTGGEVWKK

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