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 Ga0181387_1000105

Scaffold Ga0181387_1000105


Overview

Basic Information
Taxon OID3300017709 Open in IMG/M
Scaffold IDGa0181387_1000105 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 10 SPOT_SRF_2010-04-27
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)18129
Total Scaffold Genes39 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)15 (38.46%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families3

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?
F004358Metagenome / Metatranscriptome442Y
F007974Metagenome / Metatranscriptome341Y
F044789Metagenome / Metatranscriptome154Y

Sequences

Protein IDFamilyRBSSequence
Ga0181387_100010513F007974N/AMSKRLKPGADIRAPNPSKRKLLGRSSGPLVFNEHVNRMVTPKIDKAINNNREK
Ga0181387_100010522F044789N/AMNENIKAILGLNSAPPRETTRNRRGVMNYGHKTAGSIQVFTNESWERNKKYYVPNGPRSCVKNFMRG
Ga0181387_10001056F004358N/AMYLYFIAFLTLLIYVKVLSIINRYMFGLITMLLTTLGATGMGSMLKIVGGLVQSISDEREAKAKREMARDMAMSNADLKFQQTVFGNSSDPEANLFTRATRRLIALIGMLNFATISILCTLYPSVELVTFTPPENKEAISLIWGLIKFPSGADITTSITTGHISLVSIATLGAIVGFYFTPGGKR
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