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 Ga0136847_13123342

Scaffold Ga0136847_13123342


Overview

Basic Information
Taxon OID3300010391 Open in IMG/M
Scaffold IDGa0136847_13123342 Open in IMG/M
Source Dataset NameFreshwater sediment microbial communities from Lake Superior, USA - Station SU-17. Combined Assembly of Gp0155404, Gp0155335, Gp0155336, Gp0155336, Gp0155403, Gp0155406
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterUniversity of Minnesota - Twin Cities
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4266
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (75.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Sediment → Freshwater Sediment → Lake Superior Sediments

Source Dataset Sampling Location
Location NameLake Superior, USA
CoordinatesLat. (o)47.1675Long. (o)-89.65985Alt. (m)Depth (m)190
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004595Metagenome432Y
F015499Metagenome254Y
F030040Metagenome / Metatranscriptome186Y

Sequences

Protein IDFamilyRBSSequence
Ga0136847_131233422F015499AGGMPAVGEVIAFAEIVRMRRRRMARTLHERCRVLIADSVVAARAELVLAPMVERAVRTARLRKLERLEEYASALG*
Ga0136847_131233424F030040GGAMMNRTLDGIRCRTARPIAHHKGYLPRRTEGTIRYTIENIGRTLLRVDFDCGDSLMVLADDVTMDGDGYAQPT*
Ga0136847_131233425F004595N/ALPETNRAKVIEVDFAARRRVQPLTARREVAKPTTGPAAAVHALLDSLAFLVFWRPPLRRSSGEYLGGRWDWGWTLFVWTSDAAVGPVGDDLVKSRGYLPQRLTRQGFMSFLRHERDVGGLLIDGELDGDGQIIRAEPDQLVPRAEAISTLGP*
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