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 Ga0224906_1000374

Scaffold Ga0224906_1000374


Overview

Basic Information
Taxon OID3300022074 Open in IMG/M
Scaffold IDGa0224906_1000374 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 56 SPOT_SRF_2014-09-10 (v2)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)26201
Total Scaffold Genes41 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)38 (92.68%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
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?
F000256Metagenome / Metatranscriptome1448Y
F004952Metagenome417Y
F010322Metagenome / Metatranscriptome305N

Sequences

Protein IDFamilyRBSSequence
Ga0224906_100037418F004952AGGAGMNLTHTHEFLITHITDSGTGFAVRTDNGESVHISPRLLQQAHANLDDICKGIIVQNAIEENRERTPWVAAYVQERRPARDVLGLATDAPAEAVQAPTEEPEPIDWADVQRKIISMLQSDDVTYCETADIADVVGVETRKLSQHLENMHARGEICRAHVNQRAGQQRATLVLWSINADVYK
Ga0224906_100037424F000256GAGGMADGVSGIGSAPFNVQSDIHQQTQTRERIEAHLVEQRVTKEHRANHTHLEALREQKLDLGNGYDKFGTKTNADRPQGTNINIEV
Ga0224906_10003749F010322GGAMVWTCSVDDDFTLTPEQHAEMSAVASNTMSEANALMRDMLAITERTELPDLAKVYALGAALQSVIGFMRENDCDVQDAIAMTMGIIFETYSTPDKEDMH
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