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 Ga0209067_10004391

Scaffold Ga0209067_10004391


Overview

Basic Information
Taxon OID3300027898 Open in IMG/M
Scaffold IDGa0209067_10004391 Open in IMG/M
Source Dataset NameFreshwater sediment microbial communities in response to fracking from Pennsylvania, USA - Cold Stream Run_MetaG_CSR_2013 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)7935
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (80.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
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 NamePennsylvania, USA
CoordinatesLat. (o)41.1289Long. (o)-78.4195Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001603Metagenome / Metatranscriptome664Y
F010557Metagenome / Metatranscriptome302Y
F028251Metagenome / Metatranscriptome192Y

Sequences

Protein IDFamilyRBSSequence
Ga0209067_100043912F001603AGGAGVKLQETSKHLLLSLFIALVFGLTMYPTKAQAQIIDQLDVNVPFQFHAGNAKFPAGQYVIRFVDDSDQSYMEISSADGRTSALFQVRATEANSTPAKSELIFNKYGNRYFLAKLFEGGSGSGDEVIESRYEQRVDKATLEAQEHVPAQRHGQQGS
Ga0209067_100043914F010557AGGAVNEDRTNLNTALDNYLKSGQQFGDGEKFYLLGFEAALHARNRCKEFDQIASEMTSDLEELQQQYPSVPVEEPFTLGFQQGREYYQRLCGDSNPV
Ga0209067_100043915F028251GGAGGVKQMVDSSGMKYAVIAGLRTGTGPERLVIGYPSEKSLRDLIAAASIIALGFSSREEAVAGGGASMPTAIYRQQMPEGIAGAGTERNRQRLNWTERRGELGSVLRRLGRFLVASYSQVATSVIAIFFSRNAVSAVVRMVLGSSV
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Institute for Fundamental Biomedical Research
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