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 Ga0335004_0000006

Scaffold Ga0335004_0000006


Overview

Basic Information
Taxon OID3300034021 Open in IMG/M
Scaffold IDGa0335004_0000006 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME01Oct2014-rr0057
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)273309
Total Scaffold Genes265 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)35 (13.21%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes(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?
F054584Metagenome / Metatranscriptome139N
F071986Metagenome / Metatranscriptome121N

Sequences

Protein IDFamilyRBSSequence
Ga0335004_0000006_273045_273308F054584N/AVQDAIAEWKVVFDRNPFESAFKLSIENALSTKLEVQIVSSSGLLISTRYVPIDDLGEAQFGEDLTPGVYFVLVKQENNRQTLRMIKY
Ga0335004_0000006_71219_71908F071986N/AMKNRILKLVFLSVIASCISKSSIAQISKGYLTLGGSMGANITLDSKSTIGLLSTSIPGYTQWNFSPSVGFCITDEIVIGVGLNIDSKFIYQVSSIDNSKTENVMLSGIGANLTFRKYNKIKSAIYYYTQVGVGYSIQTGTDRIPLGTNDFINAGSILARSTTVTINPGLTFFVSPKWAIDFSLNNILAFTYRTSKYFDYGPEDIVEKDGSLSFGYGLTPTLGVFYFLGQ

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