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 Ga0207653_10000039

Scaffold Ga0207653_10000039


Overview

Basic Information
Taxon OID3300025885 Open in IMG/M
Scaffold IDGa0207653_10000039 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-25-1 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)98540
Total Scaffold Genes95 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)71 (74.74%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

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?
F001446Metagenome / Metatranscriptome692Y
F002155Metagenome / Metatranscriptome589Y
F052898Metagenome / Metatranscriptome142Y

Sequences

Protein IDFamilyRBSSequence
Ga0207653_1000003929F002155N/AMRASCVVRRASYALLLGACTPASTRPSFAPMPEALHAVVNARPADVTQTAADLLRADTIGVHVMNLRDAFLETDAFAGTYRLRLWADPDVPGKARVTIEAVYRPAEDPSRTARDRERASPPGSPGQLRAERLLASLKDKLGVTTY
Ga0207653_1000003944F052898AGGAGGMRESSLLSLMERRRVLLDQASAALRGHIVGLWRLTDAGLTVVEIVSPADAPPQLLNLDLGGMLHTWGRLARPESRWVGCWTGGPIWHIAPVRLDPPDPPPSGIERRSPERLVIELAGLSLGALERIWQAADQATVYLCAALEVLDSCLGRVRQADGLSVGARAHLLADLAGVADAIDVALRT
Ga0207653_1000003962F001446N/AMTFNKMGTLPLPLALHLATYTVIGLFCAFAGGLNLIDPTKIFPNAVIFLGLAGFSWGYVFGILMARKEVLGLGVVASIGYIAAGIWQLGPHWSLGALLLAVGAYGLATLTLYRRQILEA
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