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 Ga0075017_100014731

Scaffold Ga0075017_100014731


Overview

Basic Information
Taxon OID3300006059 Open in IMG/M
Scaffold IDGa0075017_100014731 Open in IMG/M
Source Dataset NameFreshwater sediment microbial communities in response to fracking from Pennsylvania, USA - Alex Branch Run_MetaG_ABR_2012
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5011
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (80.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

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

FamilyCategoryNumber of Sequences3D Structure?
F004823Metagenome / Metatranscriptome422Y
F015384Metagenome / Metatranscriptome255Y
F029198Metagenome189Y
F094236Metagenome / Metatranscriptome106Y

Sequences

Protein IDFamilyRBSSequence
Ga0075017_1000147311F015384AGGAGMSWFHSSTATLDTRNHASPAEIVACFQDQRNVLGRLAFLITGDQATADLAVVQACQITLQGNSPFRDWLLEWAKAATIASAISHGTEAIRICEAAYKDQRCPHVEHLSPGDDEERAASLDLILG
Ga0075017_1000147312F094236GAGVLSIFPQPARETSFRRNYLTYNIDSHSNSILCLPALGNRAAVSVSIYIFWNRSNGQSCETDLLSEIKAFLDGWGIHQR*
Ga0075017_1000147317F029198GAGGMDSKPNSRAVRVGGEVIVLHCWACGTAHCVSQELCVPGELSDMVCSDSNCAMSMFLVNELVFDDQTRKQMTKSELGAHFAFLSRFWSFGDEKKQVE*
Ga0075017_1000147319F004823AGGAGMYVTKAINGVPAIQRDGQSVLRVCDQNWEFANWLCALLNELGHKSELLLNEQDWEWLNAYDRAFRRTAHHA*
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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