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 Ga0335051_0000019

Scaffold Ga0335051_0000019


Overview

Basic Information
Taxon OID3300034109 Open in IMG/M
Scaffold IDGa0335051_0000019 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME26Aug2009-rr0158
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)51440
Total Scaffold Genes87 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)61 (70.11%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater → Freshwater Microbial Communities From Lake Mendota, Crystal Bog Lake, And Trout Bog Lake In Wisconsin, United States

Source Dataset Sampling Location
Location NameUSA: Wisconsin
CoordinatesLat. (o)43.0995Long. (o)-89.4045Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F047555Metagenome149Y
F067543Metagenome / Metatranscriptome125Y
F081247Metagenome114Y

Sequences

Protein IDFamilyRBSSequence
Ga0335051_0000019_11234_11515F081247AGGAGGMDERPEDLYGANLPILDKLRLLAEWAPLLGRVQVIMDAKTPYDQSLAVVKALQWAAGKSDVDVDDEALFHLEALLKTPEGQAFFQWVVSKVPA
Ga0335051_0000019_17252_17584F067543GGAGMPIPPNVENEYRLSPRVVLRPGDRFKASAGPYYRLDDGRRVPMAARGTFVLVEIVRQRTRVHLLAYGRDGWALLHVEGRRRSKVPGLVCRPYRVRRAGKPDAIAFRKPIA
Ga0335051_0000019_30341_30829F047555GGCGGMSLTATVHANVTARLQSQHGLTTAITDQPIEFAFDVGDCTKVWSDRRTFISSGLDEVDFATLGIGVVKLLCIKNLSTTNQIALSAGWTGSQFSVFRQDVTAWNFSPMINLGSLTLRGYPIREGGAMLLSCPNSAGFATTSGGSILRIGGTNGQSYEIYVMGT
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