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 Ga0208465_1000192

Scaffold Ga0208465_1000192


Overview

Basic Information
Taxon OID3300020570 Open in IMG/M
Scaffold IDGa0208465_1000192 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 31AUG2010 deep hole epilimnion (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)19676
Total Scaffold Genes55 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)39 (70.91%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Epilimnion → Freshwater → Freshwater Microbial Communities From Lake Mendota And Trout Bog Lake, Wisconsin, Usa

Source Dataset Sampling Location
Location NameLake Mendota, Madison, Wisconsin, USA
CoordinatesLat. (o)43.098333Long. (o)-89.405278Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000325Metagenome / Metatranscriptome1296Y
F008812Metagenome / Metatranscriptome327Y
F012108Metagenome / Metatranscriptome283Y

Sequences

Protein IDFamilyRBSSequence
Ga0208465_100019242F012108AGGAMINLQLTVREAVWILSKIESYDTIYDKITMAFEDALNVNRNKTVTITGGMNLDNRIACIKAIRLHSGWGLKEAKDWTDVLVGGWKYDKFVPAESGAKQSITLSTPEAAKNLLRDLTTLGCEGFLS
Ga0208465_100019246F008812N/AMDVDNLYMEVRKQKTKDFQMIQWVGILFTLVGLVYTGVKDYQKGDIKLPEIKKPLTVVKYPVQYCLMAYDPNLDKVFYLHENGQWYDYAPQQRRYEATPQVRQQTQTQGQTALGTVNGSQGISRYGYGQQAQATAYTQRY
Ga0208465_100019250F000325GGAGMKVANGNDKLGKGCLVVSRPVGDTCPSSCAFLGNGCYAENTEKIYPGVRPAGMQNLITERGRVRAMILDAMRQGKSIRWHERGDWFINGKLDTDYVDNVTWACESILSEGKTLPDMWFYTHIYDSRLVSFSKYMAVYASVHNAEDKKVAEYAGFKLFAWCDSDEKIAKKRPRNKVKADAWRQSLPKLVIIDDTKYVTCPEIRRGRGVVTCTPTKGSVSCDLCVRGLANVLFPSH
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