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_10106549

Scaffold Ga0065705_10106549


Overview

Basic Information
Taxon OID3300005294 Open in IMG/M
Scaffold IDGa0065705_10106549 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)6498
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (70.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(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?
F002587Metagenome / Metatranscriptome546Y
F015782Metagenome252Y
F022290Metagenome215N
F025352Metagenome202Y

Sequences

Protein IDFamilyRBSSequence
Ga0065705_1010654910F025352GAGMSSALDEFKKPIEEWARALVDGKPMENLLILYKLLYALGCRIDGIDFEIDRLCVAAIKKAKTLS*
Ga0065705_101065494F002587GGAMSGPFLPVAEWRFTKMSEWIEVPAHRIYVISERELRDDFDYIGENGRRAPRDEIPYRFVRKKDGKVFKWARFAPQYTGVHVCTALEEI*
Ga0065705_101065495F015782GAGMKQYKDHPIYGVAVPAPESLWYSRGLVFDRDLNQTIEIKRIESNPRTFKTKKQAEKYGLELCKEWIEKQP*
Ga0065705_101065498F022290GAGMNRVDLKRLKEKEDAAIKIIDSWPRIFQLLVYRQLYAFGIRISNIDFEIEKELKKST*
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