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 Ga0256313_1025556

Scaffold Ga0256313_1025556


Overview

Basic Information
Taxon OID3300025757 Open in IMG/M
Scaffold IDGa0256313_1025556 Open in IMG/M
Source Dataset NameMetatranscriptome of freshwater microbial communities from St. Lawrence River, New York, United States - Law_Miss_RepA_8h (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)864
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)2 (66.67%)
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: New York
CoordinatesLat. (o)45.0061Long. (o)-74.7949Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000311Metagenome / Metatranscriptome1326Y
F001043Metagenome / Metatranscriptome794Y
F001125Metagenome / Metatranscriptome769Y

Sequences

Protein IDFamilyRBSSequence
Ga0256313_10255561F000311N/ALEMAYWDAQITGLDPEFMPPLTFNVGTGSIEKVSRIRDKYNLSESYWSDREATGYKEK
Ga0256313_10255562F001043AGGAGMSDYKDGFDDGYKFAREEIMERLSEIDINDIDTWILDRLCEMIEGGKL
Ga0256313_10255564F001125AGGCGGMGDRANFGFKQSNDTTIFLYGHWAGHGMLERLANAVEAARPRWTDESYATRICVSQMIGEDWKSETGWGLSVNRILDNEHKIPVIDWAEQTFTLMEEDLQTVVFSLSLDKFCSKYSQ
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