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 Ga0208555_1002922

Scaffold Ga0208555_1002922


Overview

Basic Information
Taxon OID3300027213 Open in IMG/M
Scaffold IDGa0208555_1002922 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1449A-3 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2633
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

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

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)46.2327Long. (o)-123.9168Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F023295Metagenome / Metatranscriptome210Y
F048257Metagenome148N
F063343Metagenome129Y

Sequences

Protein IDFamilyRBSSequence
Ga0208555_10029222F048257N/AMTAFPSSVAARKLIKGENYTESAYWVLKRTLLIRSGLSLAGEKKGIWKKSLYGSLAVQAFVTAWTATHMDEPVASLPSGEVAIQKDVLGILGTYLLRSAIVGTGLWLSGERRNLTRNTLISTAMIQASVLLWAKDQEV
Ga0208555_10029223F063343N/AMNYLILLGILGLFILGNKVRTNWVSGIKSTLIKLMVPGADRRLFSGFVQATFSWVRNPASWVRVFNWTGVAAGINGLGGVGGGTLISRRHVLFANHVPYPARPIDIFFVNKDSRTFNYKVTNVQQVGSTDIAIGTLDKDADPSLIVYRVLPDNWLQYIANKPVPLTATYIAAGITTPIQTFVLPILYANQDRKVSTGDVININLAGNASVSIPAFEPARAFGDGVRGGDSGNPIFAMLGDELVLLGGWYTGADGDATVGTFPWLLYQKSAIEKIMGMKLQVADMSGLTRIA
Ga0208555_10029224F023295GGAVKHLRQAYTQAKLLLISRRSLVLLSMLQSMGCQTRVILVPDGQPIMLAEPVRAKVYVFDSTGKLVPSSNRVVIPAGWYALPRK
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