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 Ga0209588_1000037

Scaffold Ga0209588_1000037


Overview

Basic Information
Taxon OID3300027671 Open in IMG/M
Scaffold IDGa0209588_1000037 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - Rivendell_Oct2014_Saprolite_2_DNA_Rhizosphere_1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)63830
Total Scaffold Genes74 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)55 (74.32%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Vadose Zone Soil → Vadose Zone Soil And Rhizosphere Microbial Communities From The Eel River Critical Zone Observatory, Northern California To Study Diel Carbon Cycling

Source Dataset Sampling Location
Location NameUSA: California, Eel River Critical Zone Observatory
CoordinatesLat. (o)39.7291Long. (o)-123.6419Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005875Metagenome / Metatranscriptome387Y
F012855Metagenome / Metatranscriptome276Y
F014244Metagenome / Metatranscriptome264N
F016951Metagenome243Y
F104941Metagenome100Y

Sequences

Protein IDFamilyRBSSequence
Ga0209588_100003714F014244AGGVAFGEQTYTLLMGEARARGITIQELLRAVVIPDWFKAKYEPVPRQNPVIERRTREEEPVLPTSFSNKLRY
Ga0209588_100003727F016951GGALAIKLESSEIQYQTQIEVPITTADFFFARATTYARFRRWRPHLTDSQMIKDEELRSLLRKRGYKVVELAYNSYSDKKRDDLYQQLLNNLGRE
Ga0209588_100003734F005875GGAGGLTRSVMIIGLTGGSLFLLAGFLSLLPWAVSGSIAGVLLGGWFGGEIKKRLDKGGNEGGKETRVIRFRKKALLEDNVSEMRTAGWEPRWESYRETQTGLLVRRIVYSVVMERKQRKHEFKGLRQLSKLLFPHKQHS
Ga0209588_100003738F104941AGGTGGLFPDKAKMVRSANALFVTLAVATGVYLVIAILLTFGKPGFARDPNIIPWLFLGLALVSLANIGVTVFVQTSKKLMSERLRYDPISRTYLIMSTGAILSEAHAIYGLVLTLLSGSVFYGVGFTIVALASLWWVWKRFKQSLASLPNE
Ga0209588_10000374F012855GAGGMSLGYSPETKEKAALSGSPWEKTGYVTIKKTGQRSIVLKGIASEIVKTRQKEAQAAEPKK
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