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_10000086

Scaffold Ga0207665_10000086


Overview

Basic Information
Taxon OID3300025939 Open in IMG/M
Scaffold IDGa0207665_10000086 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)60660
Total Scaffold Genes47 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)39 (82.98%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria(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?
F000430Metagenome / Metatranscriptome1149Y
F001189Metagenome / Metatranscriptome753Y
F104854Metagenome100Y

Sequences

Protein IDFamilyRBSSequence
Ga0207665_1000008620F000430AGTAGMVFQTRKQNLEPVAEPEAGRPAGTGEEWLGRNRSSKRRLWERLNPLSRKQIRVIAEALALQQTHAQLPEPLRARLSAAAGEVERLASRLRALLAEVARRTPPRA
Ga0207665_1000008646F001189N/AVDKLPLLVFGPLAIAAVLLVIATGIRQTIARFRSRPTPDQLRATYEAYLRRLLDPQPEAVEKELGKLLPESLLRLYEDRSAVQSVGFQLEKPGKRWWPKRWQVYCFEPLDLESLNELPYEEELGPGFCFATTGRGSWYWIAASDLRAKDSPVIFLDYDSGRSHGETVAATLDEFLNWPRFPTP
Ga0207665_1000008647F104854GAGGMPTPTGTTAPTQTKTLESRVPGSVMVEVAPPPVPSRSNPLRKPTHAEAKSKLKTGMGILIFGLVVGGALLYFGFKILGGAALLFFGGGGLAIVLGRKDEVAACPFCGAVLDNLPKPNPDNVPRPVQCKKCWEYSGLQKGSVSPYNPNAMEERPTFRAPVAQTVVWPRACVQCGAEPTRFEEVSTSNLSAGFLVVGTVRVKTFKLSGVPYCNAHKKAVEMSTGIGNKLYLDWRSLAMMRRYLAANRGRF
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