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 Ga0070689_100142156

Scaffold Ga0070689_100142156


Overview

Basic Information
Taxon OID3300005340 Open in IMG/M
Scaffold IDGa0070689_100142156 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS S2-3H metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1930
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Switchgrass 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?
F008484Metagenome / Metatranscriptome332Y
F033236Metagenome178Y
F068660Metagenome / Metatranscriptome124Y

Sequences

Protein IDFamilyRBSSequence
Ga0070689_1001421561F033236GGAGGMVELRFRIRSTVFNFQEFSSRRSTIRPLALCLPSVEEAALLGEVDEVGRVIPRRGVFFTGNLRTGPVIEGFEDC
Ga0070689_1001421562F008484N/AMRTFTDAELKIIHTLSTRPPQSVLQIKEACPLHSVCTPLPLFRVYKIDEESFEAQWNGFHEPGTKQTFRFDGVN*
Ga0070689_1001421564F068660N/AGNTAEAKRHFDKAAEVDPARPVPLRKLAELAAKDLAWADAAKWEELYLKTDPQQLGHHWAVLGDYRLAAEQIEQGSRALETALHIDPYVYWAHFRMARAFEKNKDTDSAAKQYEFLMRYAFDRDPDIYVKLATIYKDAGRKRDALRVLEKGRRILATNPAIYRLYREIQGAG*
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