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 Ga0222718_10091356

Scaffold Ga0222718_10091356


Overview

Basic Information
Taxon OID3300021958 Open in IMG/M
Scaffold IDGa0222718_10091356 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_27D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1813
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (75.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → Viruses → unclassified viruses → unclassified DNA viruses → unclassified dsDNA viruses → Prokaryotic dsDNA virus sp.(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine Water → Estuarine Microbial Communities From The San Francisco Bay-Delta (Sfbd), California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)37.6183Long. (o)-122.2916Alt. (m)Depth (m)12
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005373Metagenome403N
F069852Metagenome123Y
F100033Metagenome / Metatranscriptome103N

Sequences

Protein IDFamilyRBSSequence
Ga0222718_100913562F005373AGGAGGMNEGLENIKQIEGLEKKVLILCDLLSQMCCNADEDTPAEYRTKHFRDAMNEAYEYLEKIGYLKGDE
Ga0222718_100913563F069852AGGGGGMKIKVTRADIQQGEAGNSSECAIALALQRHFKTNCAHVDGAFDRDGPILKVDDKELKVSEKDIYNVGTFIDLFDDYVINGDDVAIDETCIPQPFEFEVMEGK
Ga0222718_100913568F100033N/AMGGGKVMLEDKHCQIILKNEDEDTNKILMDFDLILRTNDERTQYEYFDVYDYKNNQM
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