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 Ga0222712_10038742

Scaffold Ga0222712_10038742


Overview

Basic Information
Taxon OID3300021963 Open in IMG/M
Scaffold IDGa0222712_10038742 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_657D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3670
Total Scaffold Genes15 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)15 (100.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine Water → Estuarine Microbial Communities From The San Francisco Bay-Delta (Sfbd), California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)38.1516Long. (o)-121.6883Alt. (m)Depth (m)10
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000821Metagenome / Metatranscriptome876Y
F001477Metagenome / Metatranscriptome687Y
F003212Metagenome / Metatranscriptome500Y
F058947Metagenome134Y
F083706Metagenome / Metatranscriptome112Y

Sequences

Protein IDFamilyRBSSequence
Ga0222712_1003874210F003212GGAGMKDKWLVTLEIDTYDGDPKSWNWDTLYIGEETVKIVETQFKGRVLPTSEGESND
Ga0222712_1003874211F058947GGAGMISCELQDLEEIMGKAGVLLTGNAYDKAQDYLQDHCVCATYNYLLGYKIGRE
Ga0222712_1003874213F000821GGAGGMNKEYLQAKADLCLDQAKIDLQQEEIARAIANLRRANSALAQLFGFDEGESE
Ga0222712_1003874215F001477AGGAGGVSNIYTIHPKKSDLILFYEVVTPEGENEWGGASAEQAIQWLSLAATGSRVLVSAWDSDEEDAHLVGQTIDITEIIQQAREVG
Ga0222712_100387427F083706GGAGGMEYITPRGWLVFGILIGLGIWGLWEIASHLLWTGTGWEWCQDLLTCEREGK
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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