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 Ga0209189_1002292

Scaffold Ga0209189_1002292


Overview

Basic Information
Taxon OID3300027747 Open in IMG/M
Scaffold IDGa0209189_1002292 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Croche, Canada to study carbon cycling - C_130820_EF_MetaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)13488
Total Scaffold Genes48 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)41 (85.42%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Alteromonadales → Pseudoalteromonadaceae → Pseudoalteromonas → unclassified Pseudoalteromonas → Pseudoalteromonas sp.(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater Lake → Freshwater Microbial Communities From Northern Lakes Of Canada To Study Carbon Cycling

Source Dataset Sampling Location
Location NameLake Croche, Canada
CoordinatesLat. (o)46.8319Long. (o)-72.5Alt. (m)Depth (m)3
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F035281Metagenome / Metatranscriptome172Y
F036210Metagenome / Metatranscriptome170Y
F043902Metagenome / Metatranscriptome155Y
F061803Metagenome / Metatranscriptome131Y
F085623Metagenome / Metatranscriptome111Y

Sequences

Protein IDFamilyRBSSequence
Ga0209189_100229212F085623AGGMTLLRTLILEYDIVEIHYNELLKNKPYLIRVFSYNNSDPTELRVDENQVNNLYQTLKEYYLL
Ga0209189_10022922F043902GGAGMTIQQLRNSGYKVRVLHNRLYNGYYKWQVGSKPSGEQGYGPIDPDTKGGSTQIIIDGPSGDHYDGLAICSKKENYNKKLGVRIALGRCNIDKTFYVRAEATNE
Ga0209189_100229234F035281AGGAGMIKFVLVFALMVLGSSTYAGECANGHCTLRSRVVNVTQEIVAVPVAVTRRTVEATRNVGRRTVARVRSVVR
Ga0209189_100229237F036210GAGGMKSRFIGSDNRIEIQRKYIDQILGELDFMQIKDRLRDYLSKEKDKESNYSLEAEIRKEAPEVLVDNWEGFDGPTTLTDGGYHHV
Ga0209189_100229239F061803AGGAGMEIEFSKQEAWKILDAISAYKKDYTVTGAVSKTFDNITKKLKKVVKE
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