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 Ga0181382_1016441

Scaffold Ga0181382_1016441


Overview

Basic Information
Taxon OID3300017756 Open in IMG/M
Scaffold IDGa0181382_1016441 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 5 SPOT_SRF_2009-10-22
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2391
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → Viruses → unclassified viruses → 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)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003678Metagenome / Metatranscriptome474Y
F017146Metagenome / Metatranscriptome242Y
F102833Metagenome / Metatranscriptome101Y

Sequences

Protein IDFamilyRBSSequence
Ga0181382_10164411F017146N/AGMRITRKMKSQYRAVLNLAQGDYDQAASMIGVSTDQFIMVLLKRFRNDGPVVTKAALRKTKTTVRRLKSMCDMYDSLRPTATRRKAPMRRASTTLISNK
Ga0181382_10164414F003678GGALLYACGTVAILSFILCLYACVRVGQFINASKGLDWDAVANITGDLATTKKTIQTLNNRLNGMHSPKLADQELMMQLMQRQPNQQMNGTIKNVGG
Ga0181382_10164415F102833GGCGGMGFLSKITKIALPATIGFATGGPAGAFAGAVGGSQAEKAERKQKRLIEQRQREEQKIMSEIFGSNSTGLSQLQSAINPRTVTTNQAGFGSGFGSFLSDVGSNILSPLTSIFSQVRPFISNQSIGQPALPTLTNAGGQESSRSGTTEAFVGGIPNIIGTASRFLRTPAGSIGTGLLTGIGGSMIGGGSGGMRITRKMKSQYRAVLNLAQGDYDQAASMIGVSTDQFIMVL
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