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 Ga0209698_10042764

Scaffold Ga0209698_10042764


Overview

Basic Information
Taxon OID3300027911 Open in IMG/M
Scaffold IDGa0209698_10042764 Open in IMG/M
Source Dataset NameFreshwater sediment microbial communities from Pennsylvania, USA - Little Laurel Run_MetaG_LLR_2012 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4035
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (62.50%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Sediment → Unclassified → Unclassified → Watersheds → Freshwater And Sediment Microbial Communities From Various Areas In North America, Analyzing Microbe Dynamics In Response To Fracking

Source Dataset Sampling Location
Location NameUSA: Pennsylvania, Clearfield County
CoordinatesLat. (o)41.170727Long. (o)-78.4726Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001010Metagenome / Metatranscriptome807Y
F002004Metagenome / Metatranscriptome605Y
F062503Metagenome / Metatranscriptome130Y

Sequences

Protein IDFamilyRBSSequence
Ga0209698_100427642F062503GGAGMNDLSQVLRQKEMDIERVRKEIKALHFVIPLLTEDADRFEPGLASRSVSQLGGTGTASVKGQPRREPELPR
Ga0209698_100427647F001010N/AMAVRIEMQNTGDPRARGEIVAVIEHVLHDRAGEWRVSIVGSHANDNWEMRVEGPEGFERSYTLVGGAGEHEPAAIGNLVGKLLLARKP
Ga0209698_100427648F002004GAGMRKIPNSSRRLDEHISRALNKIKKPSTAEELTELLNRDLEPEDRPFQTKEVAERLRNTGDAVLTLYWSRTRPRR
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