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 Ga0102917_1011931

Scaffold Ga0102917_1011931


Overview

Basic Information
Taxon OID3300007590 Open in IMG/M
Scaffold IDGa0102917_1011931 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1562A-02
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2970
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (57.14%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families2

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameColumbia River Estuary, USA
CoordinatesLat. (o)46.2105Long. (o)-123.7516Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F012669Metagenome / Metatranscriptome278Y
F028145Metagenome / Metatranscriptome192N

Sequences

Protein IDFamilyRBSSequence
Ga0102917_10119314F012669N/AMSEQTYMKLKDAVKLKRPELDVKKINRENKHFKHLVDSYMNWNQPRGPYDYDEPRSTYEDDIIECIGYYNWDGFALAQHLSEYKYIEPDSDLVHILEDVISVKSSLEIEIEIQWVKENFLTIPDDVVGKNVNVKQGIRKYENHYITGIKPETYQVTVSDKIDKNGGYIVGFENVTFL*
Ga0102917_10119316F028145N/AMKLFYIFIVNLALSLFVSILLYKLFKIDISPVTISLATIVIYICLPQRFHDWISEK*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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