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 Ga0208916_10000545

Scaffold Ga0208916_10000545


Overview

Basic Information
Taxon OID3300025896 Open in IMG/M
Scaffold IDGa0208916_10000545 Open in IMG/M
Source Dataset NameAqueous microbial communities from the Delaware River and Bay under freshwater to marine salinity gradient to study organic matter cycling in a time-series - DEBay_Spr_0.19_<0.8_DNA (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)17592
Total Scaffold Genes37 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)30 (81.08%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Associated Families6

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Coastal → Unclassified → Aqueous → Aqueous Microbial Communities From The Delaware River/Bay And Chesapeake Bay Under Freshwater To Marine Salinity Gradient To Study Organic Matter Cycling In A Time-Series

Source Dataset Sampling Location
Location NameUSA: Delaware Bay
CoordinatesLat. (o)39.283Long. (o)-75.3633Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002826Metagenome / Metatranscriptome527Y
F003304Metagenome494N
F004010Metagenome / Metatranscriptome457Y
F019450Metagenome / Metatranscriptome229Y
F022371Metagenome / Metatranscriptome214Y
F033721Metagenome / Metatranscriptome176Y

Sequences

Protein IDFamilyRBSSequence
Ga0208916_1000054521F002826N/AMQVEAKDRLKWAREILLIARNKLAVERNRATHGHAIDMIQIITMVDAASLVCKEVVGEE
Ga0208916_1000054522F004010AGGAGGMPLGKDVSKNMSELARDNRRKGSERGAGGKPRSRQQMIAIALSAAGKSNKSPRKFRMRSG
Ga0208916_1000054526F022371AGGAMFCLLDLAGVVWVIGWFVLYSSLTLSAIYCAGYLIFKLIEIIRKELDL
Ga0208916_1000054528F003304N/AMKQALVTQSFGEDWQKIIDLTRPRMEAYCKRHSTDFILIDKPLTHPAQYSKSAIGNIMATKGYDQVTFVDADVLIANDCPKLSDDAGVFCAFDEGAYLDRKPDMVKLAGAFGGVIEPKFYVNTGVFVVHTKAVGILSMPPIGLHPNHFAEQTWLNVMAHLWNIPLTELDPSFNCMTSVESHFGLDRYKDAMIIHYAGQSNDLVKLSNQIKADEAKLVELGR
Ga0208916_1000054529F033721GAGGMRWIKKELDEDGKPEWAVYIDEAGEGNEEDWSHFDTYASRDEAVEACWKYTWEDYDCSDK
Ga0208916_100005457F019450AGGAGGMANIKHYYAVYNSVGQFFARFTSYSNALRWAVRNGMEWSAIIRKERETQTK
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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