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 Ga0209867_1000260

Scaffold Ga0209867_1000260


Overview

Basic Information
Taxon OID3300027393 Open in IMG/M
Scaffold IDGa0209867_1000260 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 T4_4-Nov-14 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)10914
Total Scaffold Genes27 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)21 (77.78%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
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?
F000166Metagenome / Metatranscriptome1810Y
F042804Metagenome / Metatranscriptome157Y
F061791Metagenome131N

Sequences

Protein IDFamilyRBSSequence
Ga0209867_100026019F061791AGGAGMTDWTSEEDEAFNMIEKNSNLGKQILRANKSSGMDCCTYDCVQGRDCPVRTKTLEEVASVFDKMPFGDTASSFAIFVRNMKGKL
Ga0209867_100026022F000166N/AMANIPTPKDAEVFAQSMKKWQQILNLYDWRVEKGSKPAKQAMASVEFNQSARLATYRLGDFGAEKITPESLDMTALHESLHIFLHDLMAVSQDPKSSQDEIEMQEHRVINLLEKLLKDSNGFT
Ga0209867_100026027F042804GAGGMELSRWLTTNGDNCSSTDLAGIWNKLAEWAGVADSAELRAKVLYYYARAREREKK
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