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 Ga0255074_1001621

Scaffold Ga0255074_1001621


Overview

Basic Information
Taxon OID3300027121 Open in IMG/M
Scaffold IDGa0255074_1001621 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Columbia River, Oregon, United States - Colum_Yuk_RepC_8h
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3365
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (87.50%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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?
F000450Metagenome / Metatranscriptome1126Y
F000714Metagenome / Metatranscriptome924Y
F005177Metagenome / Metatranscriptome409Y

Sequences

Protein IDFamilyRBSSequence
Ga0255074_10016211F000450GGCGGMGDRANFGFVQPNGSTIVLYGHWAGHQMLARLAEAVFKARPRWNDPSYATRITISQMVADDWNSETGWGLHVNEIGDNEHKIAIVDFQQQTFSLHEEAPRNDLDNKVNGMSNEALFTMDL
Ga0255074_10016215F000714AGGAMEETTTIGSDAFHSPAVEYNPNLLVTYKVLHGYSDPEYTTSKVASLEWDLHNGRQSQKTVSLLQSKINTVKDIILEAYEMSDDQETLQSIAEALGIELTREIQFTATVEVSGTVTLNLLEDYDLESEITDCLYVDANNGNITIDEQEVCHVREAY
Ga0255074_10016218F005177AGGAMKNRYRIEIYDEVKDNDLTLYSEQGVDKEYLTEIVFSNLRRFQGNVKAFVYDNLKKKKTTALFLPMEVIPKKTELTKLM
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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