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 Ga0207659_10000018

Scaffold Ga0207659_10000018


Overview

Basic Information
Taxon OID3300025926 Open in IMG/M
Scaffold IDGa0207659_10000018 Open in IMG/M
Source Dataset NameMiscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS M4-3 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)156920
Total Scaffold Genes180 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)119 (66.11%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Soil → Unclassified → 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?
F016854Metagenome / Metatranscriptome244Y
F031439Metagenome / Metatranscriptome182Y
F049823Metagenome146Y
F064160Metagenome / Metatranscriptome129Y
F081191Metagenome / Metatranscriptome114Y

Sequences

Protein IDFamilyRBSSequence
Ga0207659_10000018123F031439AGGMYVIPIVLIILLALIAVAWSPIFALVFFVVGFVAFLAYAGLNRRADEKLAPPEQPGRQPQHEAQGDTGMWGERKPS
Ga0207659_1000001847F049823AGGAVPATPVQGAYEVAHGVVPEEKVDDALRLLHLDLLQRGASAEELSEWLWGAHWFPHLRDRSEILALAESLPEEWRTGRICEPQILLQFPHTGPEPEISFHLDQEPAWAEGRTYLRIVGVPLSPWRGSNGGLLVETAEGPAPVEADPGDAIMMTPDLPHSGGVNFSGRLRYGVYFRWLADAG
Ga0207659_100000189F064160GAGLQDYAGVKLLLVPLAILAFVLFLLLLGAIGLAISFAVLYVFGRAWRLVSRDPRRNR
Ga0207659_1000001892F081191N/AVSPRKPLPSPEEIVAAIVALADDGFCRRAELAQRFPRLESRDLRRALRRAVVQGLVIERRGPDGAFHLAVSSEGWNRLRSG
Ga0207659_1000001896F016854GAGMASSRLKTLPKPGEVWLSCPPYLMMARIVAVDLEGESPVVSYELHDDDGSLLQAVEHATLDRGWWRTFQRLEPRFG
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