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 Ga0209583_10026582

Scaffold Ga0209583_10026582


Overview

Basic Information
Taxon OID3300027910 Open in IMG/M
Scaffold IDGa0209583_10026582 Open in IMG/M
Source Dataset NameFreshwater sediment microbial communities in response to fracking from Pennsylvania, USA - Straight Creek_MetaG_SC_2014 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1887
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (87.50%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (100.00%)
Associated Families6

Taxonomy
Not Available(Source: )

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
CoordinatesLat. (o)41.5935Long. (o)-78.5142Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F011803Metagenome / Metatranscriptome287Y
F023966Metagenome / Metatranscriptome208Y
F044745Metagenome / Metatranscriptome154Y
F061313Metagenome / Metatranscriptome132Y
F070583Metagenome / Metatranscriptome123Y
F081702Metagenome / Metatranscriptome114Y

Sequences

Protein IDFamilyRBSSequence
Ga0209583_100265822F070583AGGAGMNDQDRVLIRQGARELDRKETEQVSGGLRTLTACTWDPDFGRDGDGPPEC
Ga0209583_100265823F081702AGGAGMENQNRVLNRQGARELDAEEVEQVSGGVVHTNVITWGPTGRDGDGFLGEA
Ga0209583_100265824F011803AGGAGMDNQNRVLIRRGARELTPTEADLINGGFVTLSLCTNSPSPDGDHRPGEVGC
Ga0209583_100265825F061313AGGAMNDQNRVLLRRGARDLSGEEVEQVCGGLRTATKCTVTVGGASDGDTHSECGADIA
Ga0209583_100265826F044745AGGAGMNDQDRVLARKGARDLNEHEVVQVSGGLRTLTACTFAAAGTPDGDTFHSECGADIA
Ga0209583_100265828F023966AGGAGMDQNNRVLGRKGARELSEQEVESVTGALRVHHTLTPCFVDRKQQLLNGDQAIGECGV
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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