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 Ga0068861_100005911

Scaffold Ga0068861_100005911


Overview

Basic Information
Taxon OID3300005719 Open in IMG/M
Scaffold IDGa0068861_100005911 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS Switchgrass S4-2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8316
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (54.55%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Epiphytes → Unclassified → 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?
F001123Metagenome / Metatranscriptome770Y
F001576Metagenome / Metatranscriptome669Y
F082332Metagenome113Y

Sequences

Protein IDFamilyRBSSequence
Ga0068861_10000591110F001576AGGAVNCTAYWNHAKNAAMLVFMLLACSTSGLTQQPAGTAPEQKQPAKPATTTTTPDKKPTAKPGFELIVKTRPILNLSLKAEKAKMSEVAHQLSEKLKIPVFLGPERQKELITIEFSELTLEPALQLMSPTVYVDFELDTGSLDPPKALGIYFFDVNQGEPPVTAVVSGASQSFLVEGNTEDGVEPTTDDEKQKAEEQPLRVKYENNTLTVKAKKQPLPLVLLKIGEEIGIPVDIQNERLDPIDADISKLPIEDVVRQLSPYIKLYYRADLTRAEKRALRMVLAEPAKASQEGP*
Ga0068861_10000591111F082332N/AYNIGVRKSLTARARYFLYMLRPTDSDVSRRVLPARLSFGYYVLRPFRLLFKTKMT*
Ga0068861_1000059119F001123AGGAGGLAKQNDMINEESAGLQNGSGVAGEINESKKVFVEPAISVPVDVLEATTFFQAATSGATN*
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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