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 Ga0209850_1001648

Scaffold Ga0209850_1001648


Overview

Basic Information
Taxon OID3300026931 Open in IMG/M
Scaffold IDGa0209850_1001648 Open in IMG/M
Source Dataset NameGroundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T2_23-Sept-14 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2035
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Sand → Unclassified → Sand → Groundwater Microbial Communities From The Columbia River, Washington, Usa

Source Dataset Sampling Location
Location NameUSA: Columbia River, Washington
CoordinatesLat. (o)46.372Long. (o)-119.272Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001538Metagenome / Metatranscriptome674Y
F002099Metagenome / Metatranscriptome593Y
F034828Metagenome / Metatranscriptome173Y

Sequences

Protein IDFamilyRBSSequence
Ga0209850_10016482F002099AGGAVREFYSIAWGIHDPTERHRLMVEWLTKHQQLCKSSDFKVIWNNLAEWAGSADSHHLRALVVHGYKEALEREKK
Ga0209850_10016483F001538GGAGMIDTIKLFPTVQPSGYPDRHDLAQVKLEKQHEMNKVNELAKQKHTQLQDLAFEIYTKKVVQERLRMEIFTNRKLDIYA
Ga0209850_10016484F034828GGAMVTKKTPAKVAPVKRSVAKPKTEQTINVTMAAPAKSETKKDDSTLGKIIGLIEWVDNPFKLFTVILLAFLAFAGYFAWDSRQVILQAITNQDKMPQLVKQEQLITPAQSLLKDVDGLVLLVHKANLSTNSRTTVLALNSDGSREKTMEGTVTSLFNASADRN
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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