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 Ga0075474_10013282

Scaffold Ga0075474_10013282


Overview

Basic Information
Taxon OID3300006025 Open in IMG/M
Scaffold IDGa0075474_10013282 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_22_D_<0.8_DNA
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3093
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (9.09%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Parvibaculaceae → Parvibaculum → unclassified Parvibaculum → Parvibaculum sp.(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?
F008547Metagenome / Metatranscriptome331Y
F048960Metagenome147Y
F068778Metagenome124N
F073484Metagenome120Y

Sequences

Protein IDFamilyRBSSequence
Ga0075474_1001328210F008547GGAGMSVTIYLTDHHGRKVAFFYRIDSERYLTAPQLIWACRQYPEYQGTAESKEHFIEQAKSVMKQLNRSPKTCDTCGLTSPKMEAQLTCPECLLTDK*
Ga0075474_100132823F048960N/AMKPIKIINRIPSSADMIDKEVDKLFNPKLNNFLGYAFPLICCTGWGLILYAILFS*
Ga0075474_100132827F073484N/AMKINQPNENCLYVTIGNFTYYFDDSIDGECTVNRWHKDDDDINEPELFQTTENE*
Ga0075474_100132828F068778N/AMNYLLGNKNIVDWGVFAEVEDSTDPELTQQIELVLPEHIQQEIYKLITDNIDQTKAVEALAQF*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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