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 Ga0065705_10142622

Scaffold Ga0065705_10142622


Overview

Basic Information
Taxon OID3300005294 Open in IMG/M
Scaffold IDGa0065705_10142622 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere bacterial communities from Rose Lake, Michigan, USA - RL2 Bulk Soil
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusDraft

Scaffold Components
Scaffold Length (bps)2107
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (57.14%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria → unclassified Candidatus Rokubacteria → Candidatus Rokubacteria bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → 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?
F000517Metagenome / Metatranscriptome1061Y
F018957Metagenome232Y
F060443Metagenome133Y

Sequences

Protein IDFamilyRBSSequence
Ga0065705_101426222F060443N/AMPWPAKCYECGQEVPITRPLYGKQSLLADGDLGHAISTYEAHPRRPTDTRACSAVSTTVPQYQMRKAHSTTPGEDPPQITPRSIPPRRTRKK*
Ga0065705_101426224F018957GAGMMIKWLVMMALLAGCATQQATQPDCKVKWTGQPPVQVDSCTGRSEDLTADWHWYDYVFSIPLGMVGFYDPGRAN*
Ga0065705_101426225F000517AGGAGMKWHLALLIAASFAAPPLDGLAGEKQVAHVKELAGSWRGWVRTEFGRERATMVVEEDGTYKASTTRGTLTQGAFDLRDGKLRYQSTRTTGTAGLYEDHGKTVLTMMPVDPTADTGRTEYERVK*

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