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_10026564

Scaffold Ga0070744_10026564


Overview

Basic Information
Taxon OID3300006484 Open in IMG/M
Scaffold IDGa0070744_10026564 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)1714
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Crocinitomicaceae → unclassified Crocinitomicaceae → Crocinitomicaceae 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?
F001561Metagenome / Metatranscriptome670Y
F008552Metagenome331Y
F013087Metagenome274Y

Sequences

Protein IDFamilyRBSSequence
Ga0070744_100265641F001561AGGAGVQSREQKLVYLRKTIETLWHGVSDTKTGDYPRIISLYKEVLMHDYHDADSWENMIWLMWSMAVNNKDTVWLFQAEKFAKRYLSLNSNGYRAYEYLGQFYRIMYVDLRLAVRYYESAIRWKDAPSSTHHSLISVCDKAGD
Ga0070744_100265642F013087N/AMEPTVWIYFSKTGTGYELKGSDVISGFDAFINMDGTYMVEYAFSDMKNSMHFFIYEWDNSQKKRRTVFEGYQRENVLVNFAKNVDVCHLVKQAIYRDYLITNDEEELERAIS*
Ga0070744_100265643F008552AGAAGMSVMIISFEASASEDTTLFGYFSMEYDPEFFSDIRENLTDIPKNKPLAFKLDTDNVKLLQGAFHTIRRIICVPDIEQHKFTYVFKRNFQAGTAKKFKYAKLHIDKDYFYFTGHHENLDGTKPVEFQSLNFDARFIDTIQNQFIKHQESMVN*
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