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 Ga0244777_10000534

Scaffold Ga0244777_10000534


Overview

Basic Information
Taxon OID3300024343 Open in IMG/M
Scaffold IDGa0244777_10000534 Open in IMG/M
Source Dataset NameCombined assembly of estuarine microbial communities from Columbia River, Washington, USA >3um size fraction
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)29839
Total Scaffold Genes44 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)23 (52.27%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria(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)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002398Metagenome / Metatranscriptome563Y
F029440Metagenome188N
F039635Metagenome / Metatranscriptome163N
F043935Metagenome155Y
F054036Metagenome140Y

Sequences

Protein IDFamilyRBSSequence
Ga0244777_1000053414F029440GAGMYEIAVKNNKFLHIPPRELKKKDIDWKMRPICDRINASDYCWTVFSCQGHFSGNQKGGLPYLVLLCANEKRPHILNQLYSAFEVDEEYDKNFPLLGPRSNMMLISLGTKDQNFTYISIHFNAQTKKEQDYCVNIMDTFSRTI
Ga0244777_1000053420F054036AGAAGGMKVNFRVTGSLNIPESAVFHKDVAGQLYAVEFNNKMHMLQVCLVAESPDGEFEMLHQYDDMQANDILDLRYNEAEFFED
Ga0244777_1000053423F002398AGGAMLPLLSVFLLTSVDPINNFVSLKTYISENAKAHCYVYFINEDIPDFPRVNIIEKNKVDFFEYLDTIGIEHTQVGSYYFFRKKQ
Ga0244777_1000053425F043935N/AMTKKEIEILDDQIQYLCKNYQDRIKIMRQTLGINTDFTFMREVETIENLYKSLLELRKTEKGTYFSNGTSGWTLIYLRNKKNFKDGEKFVLKTYFSFIEVDNYE
Ga0244777_1000053444F039635AGGAMTEAQANKIKTRVEDFNILYAPITLRFQMFSTSETNWAVTITYNYTPEEWMTFVSLDSNYNHVNDRLSGFQFGIESVEAYQEEHGNLKFSHSGLPLG
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