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 Ga0224906_1007659

Scaffold Ga0224906_1007659


Overview

Basic Information
Taxon OID3300022074 Open in IMG/M
Scaffold IDGa0224906_1007659 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 (v2)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4359
Total Scaffold Genes13 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (84.62%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
Not Available(Source: )

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?
F017135Metagenome242N
F020172Metagenome / Metatranscriptome225N
F030110Metagenome / Metatranscriptome186N
F064230Metagenome129Y

Sequences

Protein IDFamilyRBSSequence
Ga0224906_100765910F020172GGAMCETVKRAMFCARNKEQHIENLEVVCTLVGRLKGISQSQYLDLCARDKLENARALYMAKHYPA
Ga0224906_100765912F030110GGAMAAKAASRATQLPNPDKRIRMDGIGYSVMTDRRTVKQRNRAARQEEMRNKIEASGYETHVHEVVKKLLDPTLEFDSIEVQRMKSAADLSIKMMSKFMPDLKSTEITGADGGDLVLQVQRKRFDGDD
Ga0224906_10076592F017135GAGGMIPIISCPLPGGGQALIKTQDIGGATSGKNPKECDVYILGWAANGITVDLSLDDFAEVWVSALIDEGEPEYEVVFTPDEVH
Ga0224906_10076593F064230AGGAGMRSYLPQMKCTECFKIMVPQFKQEYPHKLEGWSCDCGNSEKAILRERQYTRDQDGKDQQRASG
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Institute for Fundamental Biomedical Research
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