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 Ga0255074_1002418

Scaffold Ga0255074_1002418


Overview

Basic Information
Taxon OID3300027121 Open in IMG/M
Scaffold IDGa0255074_1002418 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Columbia River, Oregon, United States - Colum_Yuk_RepC_8h
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2745
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (11.11%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (20.00%)
Associated Families5

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → River → Unclassified → Freshwater → Freshwater Microbial Communities Amended With Dissolved Organic Matter (Dom) From Various Rivers In The United States

Source Dataset Sampling Location
Location NameUSA: Oregon
CoordinatesLat. (o)46.1812Long. (o)-123.1834Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000962Metagenome / Metatranscriptome820Y
F028145Metagenome / Metatranscriptome192N
F030360Metagenome / Metatranscriptome185N
F043356Metagenome / Metatranscriptome156N
F045700Metagenome / Metatranscriptome152Y

Sequences

Protein IDFamilyRBSSequence
Ga0255074_10024183F028145N/AMKLFLVFFINLTVSLLSSILLYKLFKVDVSPTIISIGLIVAYMFLPQRFHDWIAEK
Ga0255074_10024184F045700GGAMKTRPSQCFECETGTYKDVTVNYFSQLNDGKGCVTKDVTIQRCDTCGAEIFDSRASQMVENNIRQQYPDYYEHSCSRKFKK
Ga0255074_10024185F000962N/AMNIHVPENLKSKYPHMEFRGKPRQLNDRTVMEAYNPATNQTFFYSFDEDFFWFPGQIPDYKLPKSILT
Ga0255074_10024186F030360N/AMSEQTYMNLKDVVKRPVLSEKTVNRSNKAFVRMVDSYQKWNESITADEPRATYEDDIFNCLFEYDMDGYNLAEYLKSKVYLEPDADLCAILDDMIYVKKSLEDEMLKQWVTENFLTISDDVVGKKVNAKQGSRKYENHYITGIRPDTYQVTISDNINAKGGRIVGFENVTFVD
Ga0255074_10024189F043356N/AMKIDIQKVDLTQFMVHEHSLNGEIVYLIQPQHIGTKWHQDNK
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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