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 Ga0102829_1048817

Scaffold Ga0102829_1048817


Overview

Basic Information
Taxon OID3300009026 Open in IMG/M
Scaffold IDGa0102829_1048817 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - Freshwater metaG S.575
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1267
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (50.00%)
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 → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameColumbia River Estuary, USA
CoordinatesLat. (o)46.2Long. (o)-123.94Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F013755Metagenome / Metatranscriptome268Y
F058715Metagenome134N
F059002Metagenome134Y

Sequences

Protein IDFamilyRBSSequence
Ga0102829_10488172F059002N/AMNILNEIKNGISRLLGVHKTLETKETPRTLKSKRSQKRGRGRPKGLRIPREIVDAVLQADKSVTNKQLAAKYRVSYFWVWSVRSKKLRLTR*
Ga0102829_10488173F058715GGAGGMSLLEKLGLSKQSMEKMLGVVAPLKKTKIKRYRRYETVPADIRKAILGEHPSYTCRELAKKYGISASTIWDIRDSKPKIE*
Ga0102829_10488174F013755N/AGGQAVSDTPISDSTAHTVGDLGMLCRRLERKLAATRKYLSEVSERAKKLEAENDALRADLLLWREAKP*
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