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 Ga0181403_1004353

Scaffold Ga0181403_1004353


Overview

Basic Information
Taxon OID3300017710 Open in IMG/M
Scaffold IDGa0181403_1004353 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 26 SPOT_SRF_2011-09-28
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3124
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (75.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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 → 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)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F022417Metagenome / Metatranscriptome214N
F028777Metagenome / Metatranscriptome190Y
F057387Metagenome / Metatranscriptome136Y
F081365Metagenome / Metatranscriptome114N

Sequences

Protein IDFamilyRBSSequence
Ga0181403_10043531F081365N/AMMDGIIGTVVSIVGGDMVNANNRRDFKAEEYNLYDVRKARPFWNQVCEANQWQVIKDEEDFAEDYVCKILNNLYVMELQVVGYWHNFDKDYI
Ga0181403_10043533F057387GGAMSKLSKPLQVFWNNQIANDNVKAAPFSGNCMFCTKAITEKDEDHSVCNICWADLGDDE
Ga0181403_10043535F028777GAGMLGLFARNKHSFTEMLFLEKDISEFRKIRYILEVEGRICSLDPEFSTSGNLRKAVHRLNRDYNSKIYKEECNCNFKVAGKLNMDGTPRKHYAYIKDWAS
Ga0181403_10043536F022417GGAGGMAQMPKFLEDYTTVDELINKMNTEYPECRLIAEMIGYGDDWVIFKSSFYETKDDTEPKAVAYAKQTSKDHNSWFEMANTKANGRCLRIVFSESTLAEEMIGIAPSKDAAPEKSNLDKKVEALEAEGLVTDISHKAQAVMNSIKDFAMDCTAQDLDKARLYTASALTELGIRKEDVTITNLQAVKDKIQDIASSEKAS
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