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 Ga0068860_100593964

Scaffold Ga0068860_100593964


Overview

Basic Information
Taxon OID3300005843 Open in IMG/M
Scaffold IDGa0068860_100593964 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS Switchgrass S3-2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1112
Total Scaffold Genes2 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

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

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?
F000660Metagenome / Metatranscriptome952Y
F004385Metagenome / Metatranscriptome440Y

Sequences

Protein IDFamilyRBSSequence
Ga0068860_1005939641F000660N/AEELVMTMTAKTLALATLFAIGSHACPASAAEREQVRMVINLVAGVKMPYPEHLRNNLSRTERVHLDTNGATVACLRLDDKIRWCYEHIAPVGARAEILRIRNEPVPGLLVGQLFHYVDDLDLDGSIDIGSTTKLEGEPHAPVGKVIQFFYRAAGRGDQFRADYQKLYDEGIQVALKYLGE
Ga0068860_1005939642F004385GAGGMFQPTQRLIVAGILLGTLFNPAAAAEREDVRKAINLITSVKMPYPENLARNRAKTERVWLEREGATVGCIKNEDRRWCYEHIPPIGNRAEMLRIRNEPSRGVYVDALFYYMVDYDLDGLIDV
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