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 Ga0181397_1005213

Scaffold Ga0181397_1005213


Overview

Basic Information
Taxon OID3300017744 Open in IMG/M
Scaffold IDGa0181397_1005213 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 20 SPOT_SRF_2011-02-23
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4264
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (63.64%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

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?
F006939Metagenome / Metatranscriptome361N
F033796Metagenome / Metatranscriptome176N
F053299Metagenome / Metatranscriptome141N
F059965Metagenome / Metatranscriptome133N

Sequences

Protein IDFamilyRBSSequence
Ga0181397_10052133F033796AGGAMSSKQDENKTYKVAGVHIGKKGVTVLEGNKRVLEEAEQSAKYLSGKYALENSLGITNFVAFNTHALTMLPPYSIDMEAEWNYVVEQEGDDTPSVEINRQIGGSI
Ga0181397_10052134F006939GGAGGMTLPLNMVTNVLSENQNKFITVKFLTKDNEERTYTGRMNVIKGLKGNERGRIAAEALRKAGYITLKTKQGYKCFNVDRVLGFVAGGRRIFGLGNEL
Ga0181397_10052135F059965GAGMPLPPSMEMELMELGILKSDTEELETIAEQTGFYALRAETIAWHNTLIVDGEVMF
Ga0181397_10052138F053299GGAGMSKDYKPYYRTDKMKQEELRVAKYISILFFTMIGFSFIGFSFVLVKAMLYMTGLFL
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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