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 Ga0102873_1000546

Scaffold Ga0102873_1000546


Overview

Basic Information
Taxon OID3300007545 Open in IMG/M
Scaffold IDGa0102873_1000546 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1547B-3
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)12901
Total Scaffold Genes31 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)22 (70.97%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage(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)46.2314Long. (o)-123.8828Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002245Metagenome / Metatranscriptome578Y
F003379Metagenome / Metatranscriptome490Y
F021757Metagenome217Y
F051930Metagenome / Metatranscriptome143Y
F076101Metagenome / Metatranscriptome118Y

Sequences

Protein IDFamilyRBSSequence
Ga0102873_100054612F021757GGAMLSKKHYIGIAEILSSYKDLIGNEFTYHDLVEDFAGYFAEDNLLFDAQRFVDACNK*
Ga0102873_100054621F003379AGGAMKKLYALVSTIAIAILSGVALSKFLNWAGNVEIFDFDLDEDIDYEEL*
Ga0102873_100054628F051930AGGAGMRIQYVSTYISMSEEGLVEKLLCPVDQSILFCNQDLADNISLYCLECEYRKDMGSATYQKIVKLVEENRSV*
Ga0102873_10005463F002245N/AMKVPHTVEFEAVIDLDKIPAHLLPALVSMDSYSIEKMCKGATLHALGMSNVIPLANENNTWAEVTIKEGN*
Ga0102873_10005468F076101GGAGMYKITLSYDGNAPHWQQDYASEFDAWKDFFAFTDWGFANEFSTVNIYNSEMKCFTRHFYREERKVVTVK*
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