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 Ga0065704_10165061

Scaffold Ga0065704_10165061


Overview

Basic Information
Taxon OID3300005289 Open in IMG/M
Scaffold IDGa0065704_10165061 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere bacterial communities from Rose Lake, Michigan, USA - RL2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusDraft

Scaffold Components
Scaffold Length (bps)1328
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Unclassified → Unclassified → Switchgrass Rhizosphere → Switchgrass Rhizosphere Microbial Communities From Michigan, Usa

Source Dataset Sampling Location
Location NameEast Lansing, MI
CoordinatesLat. (o)42.794771Long. (o)-84.393804Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004295Metagenome / Metatranscriptome445Y
F015636Metagenome253Y

Sequences

Protein IDFamilyRBSSequence
Ga0065704_101650611F015636GAGMQQLKLLEHHETAVELSIEHYESLLKRTTKDFLYTLTENVVKTEGNTIAVPYDLDEAEMFLQVAKHFCPDAVTQIENAIRL
Ga0065704_101650612F004295AGGAGGMFVENYRLDTMIGGQAQTTTIPYPKISDEDWQKWKAFLPVKSVPFCKKVLLGTRATFLQAVYGIPLDVSQEMVRGASYFEEIEVWGKREIHKDPIAVGITENGERHLICRWGKDKLIPFESIKSRSWLYHLQNFGLILLASKEFWLSAVGAAGIGILYFGLLLHP*
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