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 Ga0102893_1206838

Scaffold Ga0102893_1206838


Overview

Basic Information
Taxon OID3300008052 Open in IMG/M
Scaffold IDGa0102893_1206838 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1553A-02
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)567
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Nitrosomonadales → Methylophilaceae → unclassified Methylophilaceae → Methylophilaceae bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameColumbia River Estuary, USA
CoordinatesLat. (o)46.1867Long. (o)-123.8835Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000671Metagenome / Metatranscriptome945Y
F013891Metagenome / Metatranscriptome267Y
F073544Metagenome / Metatranscriptome120Y

Sequences

Protein IDFamilyRBSSequence
Ga0102893_12068381F000671GAGGMEKILCYSCNKSKNKLSVRKSILIPINLLMCETCITAKFEPRWIIILSGRQLGPEAVKEFIVKKRYIGTDI
Ga0102893_12068382F073544GGAGGVREYYEVIKVVSIHAERVYGSVESLGIYASKVKYQKDGIEIEEVLENDEFTIMDEIVFEHIEESN*
Ga0102893_12068383F013891N/AIVKYPEFLAIRLYEDNFLQYEGIKKEIVIDYVGKVKKLIESYGVRCELEGVPSARILRSN
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