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 Ga0105245_10000039

Scaffold Ga0105245_10000039


Overview

Basic Information
Taxon OID3300009098 Open in IMG/M
Scaffold IDGa0105245_10000039 Open in IMG/M
Source Dataset NameMiscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS M5-4 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)144455
Total Scaffold Genes112 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)66 (58.93%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameMichigan, USA
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001750Metagenome / Metatranscriptome642Y
F061939Metagenome / Metatranscriptome131Y
F101406Metagenome / Metatranscriptome102Y

Sequences

Protein IDFamilyRBSSequence
Ga0105245_10000039102F001750AGCAGMPKVTAEIPGELSRQIDRMIRDGWFPDQDAIIREALSHFVDAKSFLGDSPRMLHRFAADALNDSKPEVALKFVNRGLSLLPKQDATDFHLYQNLVELRVQILLVLDRTAEALASLEEARETLPNNPTIAKWITRLKRVKSEG*
Ga0105245_1000003929F101406AGGMLPVSRGFIAALGGIGMTLLAWFGSWAWPGWPASIAIDLLGKWGDFAELPRLQKSAIVVLLIMINVGTWAAAFRAAMLIVRKSSSAAPS*
Ga0105245_100000397F061939GGAGMIRTRGILVAALFVLFGTGCFEVEQSIELKRDLSGTANFKLGVDMEPMVMIMAKVQKEMSGDKSPLTKAEIAAAKADFKKNEKKSTTTKEDPRKQAESGLPPGVKLLDVAVDEKEFGVVTNMKFAFDKLSSLVGVKLGGKKEGDAPADPTKKSIIDTPFQGLEISETAKTISIHTKPQNPAEKVKSEASEQGPKMDPDTEKMMNDAFKNLRVAWKITAPFEVASSNATRREGNTLIWEYDWDKLQKLAASKKALDDLEVRVTYKK*
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