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 Ga0181385_1019003

Scaffold Ga0181385_1019003


Overview

Basic Information
Taxon OID3300017764 Open in IMG/M
Scaffold IDGa0181385_1019003 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 8 SPOT_SRF_2010-02-11
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2203
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

Taxonomy
All Organisms → Viruses → unclassified viruses → Circular genetic element 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?
F001611Metagenome / Metatranscriptome663N
F007722Metagenome / Metatranscriptome346Y
F009559Metagenome316Y
F039389Metagenome164Y

Sequences

Protein IDFamilyRBSSequence
Ga0181385_10190031F007722N/AWDTVATLTGDIGTIKKSIQTLNNRINGLNSPKLNDELLQYALKQQTNVHDINKKNIGG
Ga0181385_10190032F039389AGGAGGLAFLGDLGKVFGLGSSKEVLGDVGGFFGSAFGVEGAGRRAGEAIAGATSSLSTADQPLEQSAVPTGDPKQGRAQETSRTGTTTTNIIDVTRGGGMQTEAGLGLLSPLLQQGARFLSSRTGQIATGVGTGGFLASMGQNGKEKPVLTQSRRNKAKVRQLVNFMGIEGAAEFLTQSGGVRVTPNDVIMLLLRTFRNDGAFITKAQVRNLRRTTNRFKSLEKQVKEATSMARTTRRAPTMRRSASTTLIKN
Ga0181385_10190033F001611AGGAGMPLVQKTLTLAAGATSDNILANTNYEFVDGNVRLRIASAVDTAGTSATADTFLNVSVNNAEYSKDVSVPALTTGQPFGVLNGSYINNDLLTTGSQRNRVLVRFTNDTAATRTIRCGIFIG
Ga0181385_10190035F009559N/AMDQVLLYVSIILASVSFFLCLYACARVGKLLNSVKGLEWDTVATLTGDIGTIKKSI
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Institute for Fundamental Biomedical Research
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