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 Ga0075015_100042513

Scaffold Ga0075015_100042513


Overview

Basic Information
Taxon OID3300006102 Open in IMG/M
Scaffold IDGa0075015_100042513 Open in IMG/M
Source Dataset NameFreshwater sediment microbial communities in response to fracking from Pennsylvania, USA - Alex Branch Run_MetaG_ABR_2013
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2119
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium(Source: UniRef50)

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)41.1752Long. (o)-78.4168Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001596Metagenome / Metatranscriptome666Y
F036885Metagenome169Y
F094236Metagenome / Metatranscriptome106Y

Sequences

Protein IDFamilyRBSSequence
Ga0075015_1000425132F036885GGGGGVSKKKDRERVIAEITLSHLMRFGTEQGYPVTREQALAFLNQEGRAFEMWKHMMQAAEDFIACRFLHYSHSLGGHHGFASQLARFDHPTMSRSSVFS*
Ga0075015_1000425133F001596AGGAGVSWFHSSTAAVVARNYASPAEIVDCFQNQRNVLSRLALLITGDQATADQAVAHACEITLQGNSPFRDWLLEWAKAATIAGAISHGTEAIRICEAAYKDRRCSHVEHLSQSDAEERATSLDLILGTDAQIVIAELDPLCRAVLVLRVAVRSSIQDCALRLNVPRAAVLAANCHAMTWLHDGHVKLMEENHFA*
Ga0075015_1000425135F094236N/AVRSVLLAIADLMPGELTFNRNCLTYNIDSHSNSIVWLPALGNRSAVWVSIYVFLNRANGQSFETDLLKEVKTFLNRWGIHQR*
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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