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_1004420

Scaffold Ga0209588_1004420


Overview

Basic Information
Taxon OID3300027671 Open in IMG/M
Scaffold IDGa0209588_1004420 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)3960
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (100.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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?
F004922Metagenome / Metatranscriptome418Y
F016134Metagenome249Y
F053955Metagenome140N

Sequences

Protein IDFamilyRBSSequence
Ga0209588_10044202F016134GAGLQDRSSEAAQFLKSKVEGKMKTKGTQLQIEGAKTKEVKLLLHKFLHHQGLNHYRVLSQSGVLEVTPPEKHVVHEPERVGSSPTAPQTTPYYFPQTPVLTPEKKKKAKPKHKHE
Ga0209588_10044206F053955GGAGGMQTWNRTGQTRVTTIELALTSTLAAVYIVSAFFALTPFIGGPGFITLEIVMLPIIAFLLRPILATVAVLVGSIGSAFLQTGFYSTFGFAGLLIPLLAVALGSIAFHYEWGAIIPWGYVLAGAVYYFIFSKGGTLFWLAPYILVIASLPAALRVRDPYRLGLLALYTAMSEQVTLNVLSISLLNLTGAFWTGVTPLMFLERTIATLGGFAGIVALKSRLGTRLELGHVLREVK
Ga0209588_10044207F004922GGAGGMCVTAVVKCWHCGEWFAKQADRGEFENCPFCGKGFEQLSDEAQRAVKATLAPFFEVPHLKERPLTA
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