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 Ga0181351_1011012

Scaffold Ga0181351_1011012


Overview

Basic Information
Taxon OID3300022407 Open in IMG/M
Scaffold IDGa0181351_1011012 Open in IMG/M
Source Dataset NameFreshwater viral communities from Lake Michigan, USA - Su13.VD.MM15.S.D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusDraft

Scaffold Components
Scaffold Length (bps)3673
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (45.45%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Unclassified → Freshwater Lake → Freshwater Lake Microbial Communities From The Great Lakes, Usa, Analyzing Microbial Food Webs And Carbon Cycling

Source Dataset Sampling Location
Location NameUSA: Michigan
CoordinatesLat. (o)43.1881Long. (o)-86.344Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001018Metagenome / Metatranscriptome804Y
F008128Metagenome / Metatranscriptome338Y
F013517Metagenome / Metatranscriptome270Y
F017987Metagenome237Y

Sequences

Protein IDFamilyRBSSequence
Ga0181351_10110121F017987N/AGFVLLHTKSGAQAPLSHWRTYKPKEVFTQDDAWDLFFNMMEAGYAPFPGVSLPQLKAAVKKQ
Ga0181351_10110123F013517N/AMFEALFAAVLPIVKDLLWAAAGMALTYLINKIQTQFNTI
Ga0181351_10110124F001018N/AMSKITQTKLEDLNIIKLYEHYGALERSLPLLTPESQELAKAELESCANLRSEKIDRIYYALAAHEDALERIKKEGDLITQAKRHHESQLNQLKNLLGWLRRSLPLDSNRIQGKNYEFVLSRKKELTVEITSDPEFWHTDERSKYCIQQETTTSKRIVVRSMSGEVLSDRTEPKTKTETLPNLDAIRNAYENGEHLPTGVKVEQQYAIRKNRLFSTKRMEAQAPEYIGGLLQESDSAD
Ga0181351_10110127F008128GAGMEPVVVPRLTVSFAVDIDVAYNSFGGKTADEIAEALQDDLDDLLFELSPHVKGVYTSTTAVNFND
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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