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 Ga0209668_10005668

Scaffold Ga0209668_10005668


Overview

Basic Information
Taxon OID3300027899 Open in IMG/M
Scaffold IDGa0209668_10005668 Open in IMG/M
Source Dataset NameFreshwater lake sediment microbial communities from the University of Notre Dame, USA, for methane emissions studies - PLP11 PL (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5689
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (44.44%)
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 → Sediment → Freshwater Lake Sediment → Freshwater Lake Sediment Microbial Communities From The University Of Notre Dame, Usa, Of Lakes That Contribute To Methane Emissions

Source Dataset Sampling Location
Location NameUniversity of Notre Dame, Indiana, USA
CoordinatesLat. (o)41.7Long. (o)-86.23Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001055Metagenome / Metatranscriptome791Y
F001298Metagenome / Metatranscriptome727Y
F092032Metagenome107Y

Sequences

Protein IDFamilyRBSSequence
Ga0209668_100056684F001298AGGMSLYAEFLPDAKEMIADFGVAGSANSGAITFKCLISDPAVQTVLEAGGYCERTQYSVRLPAATASWSLPDGSIGASTAIISGGSPIPSLAQGKKIVAGGKDVRITTQTYKPGSAWVTLIVIDDNQ
Ga0209668_100056686F001055N/AMPGTRSIRHIVEGTLATYLSTQTGLTSVQFLTGDSAVTQTLPKAIVLCDSATPPGDLQECLGNFSCSVRITLFSNADDTTLADHRARCAALAGNMNDLASIQAAFAATGDATCYDVSVRSEDEGVDERSWATAFAFDLLAVLPPA
Ga0209668_100056687F092032AGCAGGMSAVNTGVTCLYGIESGQVASLYVQSYSVSSAFNNTGTVVNEDGLTITGRYDDRKSELTVEGVATASSVPQLGASIEFTAKTASAYPGGVASIAFSGVITKVDDKGSSKGFVSVSITAESYEEITY
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