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 Ga0181433_1005080

Scaffold Ga0181433_1005080


Overview

Basic Information
Taxon OID3300017739 Open in IMG/M
Scaffold IDGa0181433_1005080 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 56 SPOT_SRF_2014-09-10
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3863
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (66.67%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Strait → Unclassified → Seawater → Marine Viral Communities From The Oligotrophic San Pedro Time Series (Spot) Site, San Pedro Channel, Ca, Usa

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)33.55Long. (o)-118.4Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002495Metagenome / Metatranscriptome554Y
F002586Metagenome546N

Sequences

Protein IDFamilyRBSSequence
Ga0181433_100508011F002586AGGMIKVNLDPNDVELAYTIAQKRFIGNLRMNKGFSYGYDKNLKNQLYDGFLGALGEVSWAKWTNSYHNASYTDNLQRYEDSDFQDNIEIRTQNKKAYNFLLIRPGEKKGKYILIIKNDDKDFNFNIVGSFIYNDDLPPEKLSNFGYDHRPAAYKIELNELTPLEDNERQDKF
Ga0181433_10050806F002495GGAGGMQNNGSGKQKDWVLFPYDANNEKAIKIDFSGNVNLDNGNKGTILGVKAQSKDGNTKFVKVYAQVGVLFKGDDKFTGEMNYPDAGGHKGLIGWLNDQGTILSGYKNEPRPKQDSQPKKTTSSFQI

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