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 Ga0244777_10036380

Scaffold Ga0244777_10036380


Overview

Basic Information
Taxon OID3300024343 Open in IMG/M
Scaffold IDGa0244777_10036380 Open in IMG/M
Source Dataset NameCombined assembly of estuarine microbial communities from Columbia River, Washington, USA >3um size fraction
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3134
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (88.89%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (100.00%)
Associated Families6

Taxonomy
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage(Source: UniRef50)

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)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000263Metagenome / Metatranscriptome1424Y
F000852Metagenome / Metatranscriptome860Y
F001460Metagenome / Metatranscriptome690Y
F013414Metagenome / Metatranscriptome271Y
F033433Metagenome / Metatranscriptome177Y
F037727Metagenome / Metatranscriptome167Y

Sequences

Protein IDFamilyRBSSequence
Ga0244777_100363801F013414AGGCGGMKTPEQKVAEQLTNLTEDHWFNAASLARYLTDQPYYTTDRIMELVAQIIKWGGRRHEDELTPSGVYQSNSSSEGLFLANELSKTLDELTKTYQWDNLKLPVDSKKAIAKLPKVAEQSYRHSWIHDTDNRVRVTIDHPFI
Ga0244777_100363802F000852AGGAMTTKREYLKAQGITVGVRGRFSGAAKVVIAEAVAKGVTFTDEKVLKAK
Ga0244777_100363805F033433AGGAMNTKPSLEILEVNYSCSPGGVDEFEVYSTDERDFADYPLYSSESLAKAVEYCYQLGKDFTVRTLAEWEERELAYEASR
Ga0244777_100363806F000263GGAMTPEDIGLPPHLQRMVNYNVSGLDIMHGELKNLMLIAEQQLASAIETEEESEEAMDSMDRTRCEGALDTLVELYNLTYQLSFAIGVRSENLKDGH
Ga0244777_100363807F037727GGAGGLTTLTKSSKFIEYMKIHRISLIQDNENEIQDSNDPDWNFLQGQIVATEHLLSVATDIMNDDIQGKGY
Ga0244777_100363808F001460GAGGMLGYTESDLNKMINAIHDSKLFYLRYPSDLMDKTELRSDLEMAVSFLQGLWAEGYFDHTN
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