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 Ga0181423_1004522

Scaffold Ga0181423_1004522


Overview

Basic Information
Taxon OID3300017781 Open in IMG/M
Scaffold IDGa0181423_1004522 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 46 SPOT_SRF_2013-08-14
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6237
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (29.41%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

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?
F018831Metagenome / Metatranscriptome233Y
F018932Metagenome / Metatranscriptome232Y
F077316Metagenome117N

Sequences

Protein IDFamilyRBSSequence
Ga0181423_100452210F077316GAGMKKQSKGISKRLESWINNRLFKTLDPKDWEIESILYIYNNEKNSNIRGRSEQGKHSSRRN
Ga0181423_100452212F018932N/ALSNNRATRHQEIWKRTKNGLKLVLPRKITTDIGFQLMFGHREDYRVEEKRIDENANRYFTKTYLNIEDYKNYI
Ga0181423_100452213F018831N/AMKIVASVSIEIKLDDTELLDDAKDRAIDTLVDNLDDWLNNNGIPPIISIEYKLLEYDDNDIEFLN
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