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 Ga0070744_10003483

Scaffold Ga0070744_10003483


Overview

Basic Information
Taxon OID3300006484 Open in IMG/M
Scaffold IDGa0070744_10003483 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary, USA - metaG S.535
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4730
Total Scaffold Genes15 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)12 (80.00%)
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 → Unclassified → Unclassified → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameUSA: Columbia River Estuary
CoordinatesLat. (o)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000473Metagenome / Metatranscriptome1097Y
F016396Metagenome / Metatranscriptome247Y
F077310Metagenome / Metatranscriptome117Y

Sequences

Protein IDFamilyRBSSequence
Ga0070744_1000348312F000473AGGMEFINRDKEHFKYGVNEWTGEPNKPVFYTPEMAKRIRDIKKPDTALQMDIAKYPEFLAIRLYEDNFVKYEGIKKEMVIDYVGKVKKLIESYGVRCELEGVPSARILRSN*
Ga0070744_100034836F016396AGGAMRKSERLRLLEMQVVRLEMMVELYTQTLNNLLESQGLHTPTQLDAGKWYKAKLDTLDNE*
Ga0070744_100034839F077310N/AMTLDSNSIIIVIVASILSGMGTALVKEIKESKREKIRRAEREQDMLKMELKDLEIKLYKLEKDLTEWRDRYYEALQELIEVKAELEDTLIKLNHIVMHE*
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