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 Ga0181381_1002805

Scaffold Ga0181381_1002805


Overview

Basic Information
Taxon OID3300017726 Open in IMG/M
Scaffold IDGa0181381_1002805 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 4 SPOT_SRF_2009-09-24
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4649
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (54.55%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

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?
F002412Metagenome / Metatranscriptome561Y
F003169Metagenome / Metatranscriptome504Y
F004715Metagenome / Metatranscriptome427Y
F018084Metagenome237Y
F020679Metagenome / Metatranscriptome222Y

Sequences

Protein IDFamilyRBSSequence
Ga0181381_100280510F003169AGGMIKYPLYKKNNSRKITLVYPGLTTVSLDRIITYMPYYYVLAYKGSQCFRYYCELDPESADTLHDSLSARYDLVQVCDVERSEVDPDILIK
Ga0181381_100280511F020679AGGAGMSNNKNNKPYQYHYNQAMQVAMPESLYSVVYSETAFEGLTQHPSHFHTISDAQAFVDTYCKPYKQDAY
Ga0181381_10028056F004715AGGAMIYTDQENEWLSRPKKKRVSNQTADGQAPQEEDDRLWQRCWGIQTTIEVDGKQYTVPIQL
Ga0181381_10028057F018084GGAMVKTALIIVAIFIVPGIIMGTVSSYRAGQKPHRLLYRKLQIFLHRKK
Ga0181381_10028059F002412N/AMLLRAFIIYISLTTVAYALHLNTFAVWELKEQLQILYINMWELLTQLEYVRPDQRSVVYEEIQHIQQQIQDTIAEITEHDQHEHP
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