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 Ga0208784_1000016

Scaffold Ga0208784_1000016


Overview

Basic Information
Taxon OID3300025732 Open in IMG/M
Scaffold IDGa0208784_1000016 Open in IMG/M
Source Dataset NameAqueous microbial communities from the Delaware River and Bay under freshwater to marine salinity gradient to study organic matter cycling in a time-series - DEBay_Sum_0.19_N_>0.8_DNA (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)78499
Total Scaffold Genes61 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (13.11%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Coastal → Unclassified → Aqueous → Aqueous Microbial Communities From The Delaware River/Bay And Chesapeake Bay Under Freshwater To Marine Salinity Gradient To Study Organic Matter Cycling In A Time-Series

Source Dataset Sampling Location
Location NameUSA: Delaware Bay
CoordinatesLat. (o)39.283Long. (o)-75.3633Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F038206Metagenome / Metatranscriptome166Y
F101004Metagenome / Metatranscriptome102N
F101005Metagenome / Metatranscriptome102N
F102856Metagenome / Metatranscriptome101N

Sequences

Protein IDFamilyRBSSequence
Ga0208784_100001630F102856N/AMKNKKMKIEFNGQELYINFVSENNGYVLVSKDKEGTLGKFKLNTSELVGVDISKFKKVKKGKK
Ga0208784_100001647F101005N/AMYNRREKEKELMEHHSGYLEKLNSSYQFIAKTAFYSKGKFGRQIQLFENELNKGSDIYMEMVDITRDPKGMETDMVPMFWERPLFKYRYNPYFKEEYEVKVSTNSRGEEYSAYIIPTSELVCVNKGSEEIPYNEYDKNRTSEPVEQKKLSVFPDFEEEFVPKLKDVTESSEDVSAILLEIAGSFQKLATALKNK
Ga0208784_100001649F101004N/AMEDIFLRFIGEGITPNSYYVLHCVKYGIIPNSYINKELEIKRLISNEWLKEDLTLTDKSIIFTTEIDGFFKKSKKKTSKSLLGDNFEDNVKNYSEIFPSIKLASGKYARSNSKNLENAFRWFFENYNYDWEIVLLAAKKYVLEYKANNYQYMRTSQYFIRKQSSDKTWDSDLADYCEMIINKPDDEVIFIKERLF
Ga0208784_100001654F038206AGAAGGMFLPIILKDKDGEYIEHLNITHITRTSFVNVMNPDAGTKIHLRTGEVITTPVPMDIVQTEIDDCYKSAAAMIMFNILAEKAQLTKLTGGVDLDNPEQEQPPVNVI
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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