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 Ga0208546_1001429

Scaffold Ga0208546_1001429


Overview

Basic Information
Taxon OID3300025585 Open in IMG/M
Scaffold IDGa0208546_1001429 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_Sum_0.19_D_<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)7452
Total Scaffold Genes24 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (20.83%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (16.67%)
Associated Families6

Taxonomy
Not Available(Source: )

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?
F021298Metagenome / Metatranscriptome219Y
F021974Metagenome / Metatranscriptome216Y
F031070Metagenome / Metatranscriptome183Y
F031856Metagenome / Metatranscriptome181Y
F087139Metagenome / Metatranscriptome110Y
F105081Metagenome / Metatranscriptome100Y

Sequences

Protein IDFamilyRBSSequence
Ga0208546_100142915F105081N/AMTLTQDQIYKLTQLYAARVVDNMDMRDLCVFAQETIVDNMIDYNESELMEELSHYYEDDELQELVESVTQEP
Ga0208546_10014292F031856N/AMNYNVLYKGRKIYMDLTPEECSEVLQDLSEKFFSGDDIDPNFIELEEIVNG
Ga0208546_100142922F021974N/AMSNTIVSEVYSYHTNWKEGKVNQMWIEQITDKECDNLYVAVAHNPRNGSTMEMSNPRTSYHETLNWVRNWCGTFCILPA
Ga0208546_10014295F031070GGAMISLKTPRRGPYWNFWRVVLAGWIIRYPKTMGRMVLVPLGFLIVLIYNAVVN
Ga0208546_10014296F021298N/AMLSLLAQGNTGSEILSILDTLTEDNQQAVAYAEPTADSIEF
Ga0208546_10014298F087139N/AMLLSKASFTDQQLPPFIVKKEDEYTEEGNYSLHLFSRTVITTEGRKYRYLPLKFEGELARFKKRKEAEEYARYRLALD
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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