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 Ga0335068_0052576

Scaffold Ga0335068_0052576


Overview

Basic Information
Taxon OID3300034116 Open in IMG/M
Scaffold IDGa0335068_0052576 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-CONTROL-GENDONOR
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2381
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
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 → 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?
F000545Metagenome / Metatranscriptome1038Y
F000645Metagenome / Metatranscriptome962Y
F002241Metagenome / Metatranscriptome579Y

Sequences

Protein IDFamilyRBSSequence
Ga0335068_0052576_1176_1382F002241AGGAGMGREEVSKPHSIRYIRQLMEWGFDKEFIAKDCGINLASLETRLRRQEERERNGNQGTESGTGSGQSDS
Ga0335068_0052576_1521_1856F000545N/AMIKDAHPFPCSNCKLVTPHIELKRYNTEDVSEAPEEVWLVECQRCFLQRIIYPSDRVASKEDDIVRCEQCGGWKMKSGKCRVCRLAAGFEKLSEKYWTGNSTMERPYNANL
Ga0335068_0052576_1853_2332F000645GGAGVANCDVYIIKTELYRTEADTHPWTTGLSSESKSKQYALELAETGSLGRALNLAGYFAKIKQSPKKAIETTKPALAEFIKEQRPNDPEPIVWDVSAVADALGAEIIDELPLCSNGCGPMILKQGTKEGKEYRGWVCPVPKSGHPAKWMRIGSDGHWVFQK
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