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 Ga0335020_0000002

Scaffold Ga0335020_0000002


Overview

Basic Information
Taxon OID3300034082 Open in IMG/M
Scaffold IDGa0335020_0000002 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME05Jun2015-rr0088
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)352243
Total Scaffold Genes484 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)322 (66.53%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Associated Families4

Taxonomy
Not Available(Source: )

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?
F004865Metagenome / Metatranscriptome420Y
F007689Metagenome / Metatranscriptome346Y
F011368Metagenome291Y
F054559Metagenome139Y

Sequences

Protein IDFamilyRBSSequence
Ga0335020_0000002_122187_122420F004865N/AMIVTYVKKPSGKWDELTEFKNSLKQKHMQTAKVILDFKEKKCVINSLNREASYDDMLEFYKRQLGDQLTPYLPQESP
Ga0335020_0000002_308317_308586F011368N/AMNYTLQHRDIAGHTLAPGDHCLVTEHNRLILARVIKLYPNSNFLQLQPLNSSAGGRRSKPSQKQIRRECYNVLRIADQEITMSILRGAI
Ga0335020_0000002_53045_53449F054559GAGMKIGFSFGRCIRDIVNGEVSYDDVAWIISGTALRDIETVKFCIQDYMYRHDYLEGLDEEQCMEVGMRLYNEGKVFQPRLQDIRAFRIPEGAIWADLFPTNMANNHAAKTAWEAYRFMLHMTVQVPEDVKENWKG
Ga0335020_0000002_64092_64259F007689N/AMSVWIQMKLYEATIRVDGKEFKDRVGANSAEEARMLLQQRHGPRAVPYVPHMIPS
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
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