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 Ga0209716_1015990

Scaffold Ga0209716_1015990


Overview

Basic Information
Taxon OID3300025626 Open in IMG/M
Scaffold IDGa0209716_1015990 Open in IMG/M
Source Dataset NamePelagic marine microbial communities from North Sea - COGITO_mtgs_120531 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3185
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (72.73%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

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?
F002495Metagenome / Metatranscriptome554Y
F003365Metagenome / Metatranscriptome491Y
F005537Metagenome / Metatranscriptome397Y
F008307Metagenome / Metatranscriptome335Y

Sequences

Protein IDFamilyRBSSequence
Ga0209716_10159902F003365AGGMLKTIGKEWNLKEDGGCFTATHLSPSQLNKSLDMWFNDYVVLTAEQRKSLFGNLNMDIGAIVGQAVQDLIVHNLTLEEVMKGKK
Ga0209716_10159905F002495GGAGGMSENGNAKQKDWVLFEFQPDNPKSIKIDFSGNVNLDNDKKGTILGVKGSSKDGNTKFIKVFAQVGVLFRSDDGKFTGDMNYPEAGGQKGLIGWLNDTGTILSGYKNEYKPKQPKAESKEIPF
Ga0209716_10159907F005537AGGMSDNIKFINNLEKLLHEKEGDYGHFDHTAFAMVGMMEKYLSVHNNKPVKVPLKFFGLFMIFLKCWRIMQSKDYKKDSFDDINGYTELLRRLVINENKTKRT
Ga0209716_10159909F008307AGCAGMFKVLKTSSLEVAADFEEFFDGATVEEATKKAHYQIMPGELAKINITDNKFIKATIKVVGEEHDNESKQYGKIVPEAE
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