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_10022794

Scaffold Ga0207646_10022794


Overview

Basic Information
Taxon OID3300025922 Open in IMG/M
Scaffold IDGa0207646_10022794 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)5759
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (66.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Archaea(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?
F007071Metagenome / Metatranscriptome358Y
F007642Metagenome347Y
F008127Metagenome338N

Sequences

Protein IDFamilyRBSSequence
Ga0207646_100227942F007071N/AMSGLSLWLTEIRSFVFPVSQLVAWPIFFLLTSAISQQPAYFLALLLVLASDVIDKSPRNRRLFRDLVAGGATTLLALFLNDLDGVAIGAIVAIAATSRLVQKLN
Ga0207646_100227945F008127AGTAGMSDEFLPRAHSKRLGELERSNWKSLRDGRNFDRIDPAIREIVSLLNKKGYLTFSSCSGGHPTNPRWKINRHESGYLAFSPPSNVAFSLYLGLRKKNRDFTVEAQAVIDDGDGGDRETVCTRFHWQLSDRKKHKLEHYGRLFAQMKEIIENLPRAPGNGNAVLAGVFGKGNLQTGLRIVKGQMRRFTKS
Ga0207646_100227946F007642N/AMPSLTAREAVTVPEKPLAEVLVEGELSPFEHEALYRILRKGFRLEHPSYTELTDEDLVTRINVTFQHPYVTTIFTDVLQENWRDLKELLRQVRYRRGKAGAAVTFTFIGDNRRLVFKSGVLEEKELSSALDQIGHLTGILGQMLRPETMEKPLELVEAQYDRKSDRWHKFKGFASSDRNESYVFDESSFRWVRS
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