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 Ga0209406_1014395

Scaffold Ga0209406_1014395


Overview

Basic Information
Taxon OID3300025694 Open in IMG/M
Scaffold IDGa0209406_1014395 Open in IMG/M
Source Dataset NamePelagic marine microbial communities from North Sea - COGITO_mtgs_120426 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3759
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (42.86%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Pelagic → Unclassified → Pelagic Marine → Pelagic Marine Microbial Communities From North Sea

Source Dataset Sampling Location
Location NameGermany:Helgoland, sampling site Kabeltonne, North Sea
CoordinatesLat. (o)54.1883Long. (o)7.9Alt. (m)Depth (m)1
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F033826Metagenome / Metatranscriptome176Y
F089555Metagenome / Metatranscriptome109Y

Sequences

Protein IDFamilyRBSSequence
Ga0209406_10143951F089555N/AMPLRHRFLPETCTIQSVSETNLDERGLPSDDWADATINVKSKFESRGSQEDRDGRNTTIESFNVYVEKGVSVVPGDRLVRGSQYHEILIVTPYLDRYGVECY
Ga0209406_10143955F033826AGGAGMALCSVSDVQQFLQVDLNSTVEASVTNTFIPYVDAAIKRYLGHDVEQATYTEVFDGAEQQDLFLRHIPIASITTVTEDSNTLVSGNEKDYVHYDNGRLRRIVVRWSGIKPKNISVTYVGGYQSADIPEQIKQTSARASGRLLLTSLQNSAKADTGQISSHLSDNTTPTNFDIALSERIGDYDVAFADVVVQNLQPVLTNADMAILNPFKSRFFV
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