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 Ga0208009_1001896

Scaffold Ga0208009_1001896


Overview

Basic Information
Taxon OID3300027114 Open in IMG/M
Scaffold IDGa0208009_1001896 Open in IMG/M
Source Dataset NameDeep subsurface shale carbon reservoir microbial communities from Ohio, USA - Utica-2 Time Series FC 2014_7_16 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5851
Total Scaffold Genes15 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (66.67%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Nitrosomonadales → Methylophilaceae → unclassified Methylophilaceae → Methylophilaceae bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Deep Subsurface → Unclassified → Unclassified → Deep Subsurface → Deep Subsurface Shale Carbon Reservoir Microbial Communities From Ohio And West Virginia, Usa

Source Dataset Sampling Location
Location NameUSA: Ohio
CoordinatesLat. (o)40.178Long. (o)-81.073Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000473Metagenome / Metatranscriptome1097Y
F002060Metagenome / Metatranscriptome597Y
F003582Metagenome / Metatranscriptome478Y
F011938Metagenome / Metatranscriptome285Y

Sequences

Protein IDFamilyRBSSequence
Ga0208009_100189610F000473AGAAGMFIDKSQDRLKEHFKYGVNEWTGEPNKPVFYTPEMKKAVHQIKKPSMLLMDIVMYPQFLALRLYEDNFLQFEGTKKEMVIDYVGKVKQLLESYGVRCVLEGKPSERVL
Ga0208009_100189611F011938GGAGGVKEYYDITHIVFIHAEDLHGTVEKLGAYASTVSYTKDGIEYKELMENEEFTIVDEIVFTHIEDSN
Ga0208009_100189613F002060AGGMDYTSVIIAISAAILSGLGTAIIAGIRDVAKEKNRRAEREQDHLKIDLRDLKIELYKIEKELTEWKDKYYDAIQQLISVKAELEEALILVTHAEHHFDELDT
Ga0208009_10018966F003582N/AMNTYKVKLEVTAEVEAFDESDALEYANDIFGVDDEIKNVKVVSVKEK
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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