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 Ga0255072_1003333

Scaffold Ga0255072_1003333


Overview

Basic Information
Taxon OID3300027508 Open in IMG/M
Scaffold IDGa0255072_1003333 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Columbia River, Oregon, United States - Colum_Yuk_RepA_8h
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3593
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (66.67%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Archaea → Euryarchaeota → unclassified Euryarchaeota → Euryarchaeota archaeon(Source: UniRef50)

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?
F000980Metagenome / Metatranscriptome814Y
F001125Metagenome / Metatranscriptome769Y

Sequences

Protein IDFamilyRBSSequence
Ga0255072_10033335F000980N/AVILSYGDHKKALEKLVYVSGVRYNTRMTHYQKYTWVCTGDCDALIEYTMKDGFGWPSGVMQLTCPCNSRCTLVSVEDATIPYTDSPLPTKEEQMETTTTTTIPESYNSNLLVTYKVIKGYSDAEYATDKVTSIEWDLHNGRQSQKTVGVLNGKIDAVKDIITEAYADSEDQETLRAIAEALSIELIREFEFTASIEVSGTYSYNILENDYDLDLESEVTDALFADSQNGNIEITDQEVCNVSER
Ga0255072_10033339F001125AGGCGGMGDRANFGFKQSDGNTIFLYGHWAGHEMLAKLAAAASAAEPRWQDESYATRIAISNLIGEEWANETGWGLSVDRILDNEHKIPVINWTAKTFTLYEED
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