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 Ga0118687_10002328

Scaffold Ga0118687_10002328


Overview

Basic Information
Taxon OID3300009124 Open in IMG/M
Scaffold IDGa0118687_10002328 Open in IMG/M
Source Dataset NameMarine sediment microbial communities from methane seeps within Hudson Canyon, US Atlantic Margin - Hudson Canyon PC-16 72 cmbsf
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterOregon State University
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6806
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (64.71%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Burkholderiaceae → Cupriavidus → unclassified Cupriavidus → Cupriavidus sp.(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Sediment → Unclassified → Unclassified → Sediment → Marine Sediment Microbial Communities From Methane Seeps Within Hudson Canyon, Us Atlantic Margin

Source Dataset Sampling Location
Location NameHudson Canyon, US Atlantic Margin
CoordinatesLat. (o)39.54345Long. (o)-72.3998Alt. (m)Depth (m)541.1
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F009955Metagenome310Y
F010614Metagenome301Y
F013407Metagenome271N
F034560Metagenome174N
F055697Metagenome138N
F058112Metagenome135N

Sequences

Protein IDFamilyRBSSequence
Ga0118687_1000232815F010614AGGTGGMNDDETYKQWAKLCRMYITRTNAEIDQMVSEMHTMAGIHEGFENADAWEAMHDRAVDDMQAQAANSPEYAWALLRVLGAKLWMVRALEAMEEGADE*
Ga0118687_1000232816F058112GGAGMTPEQRQQLTSTQAAAQARNSEAFRMNPNLQIWLRQVRTAAVIRRTARNFVRWKNE*
Ga0118687_100023282F009955N/AMNTLDDAARAVDEALQALGQASQDLYRCRYGDREVNAAVEWNSESEIEGGPLSRELRADAIVIERWRAAVLEFAQDKKS*
Ga0118687_100023283F034560N/AMAEQNETPQDDDDGGIEWRTLNRTVRVDAATSQKLIDWIGPHLRLIVAAVAWGLFIIATCYAASLVL*
Ga0118687_100023284F055697AGGCGGMRTAAAVFCLCTVLHFPLPDGWKFTIADPPAAAQPDWYLVSFGAEWCGPCRQWKRDHLAATRKVLPVVVVDIAKDPEWKRSRQLAAPPGGRATIPGITRVPTFWLVHRASRWPVKTWVGGKTADQVRQLIPDTVPDWTRETEAAPPLPE*
Ga0118687_100023287F013407AGGMSGPITRHHWDALAADIYARGGYRNYGIDPMSILAMLNTIVPQVLQWVADCKRLRDDEVQPAVAAMHARNPAMAKRRTAAQCLKLRRKQGEQFCKDFNVPRTKRRAILQADFTLSDEQATAMAEDMIDECCNRSAEDVARFAAAARGA*
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