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 Ga0209180_10015865

Scaffold Ga0209180_10015865


Overview

Basic Information
Taxon OID3300027846 Open in IMG/M
Scaffold IDGa0209180_10015865 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - CZOApr15con2H2.8 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3944
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (100.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

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?
F001545Metagenome / Metatranscriptome673Y
F001901Metagenome / Metatranscriptome620Y
F001906Metagenome / Metatranscriptome619Y

Sequences

Protein IDFamilyRBSSequence
Ga0209180_100158655F001906GGAGMIIEPNDFQSRLRVLLGLRGAGLTDEEPSHTAERYPWCRGKEQWDVREYVRRTAIGAREYRVVRGSSIEDVYRSAERVRAAAIGTALNELESQERAGEAPGGSA
Ga0209180_100158656F001901GAGGMTRRKQPWGQQRGWIVPADGSPPQELPRHMVGHKLISWPGTMPEKQPAEPVKDVASKDHYRRYVLNPEGVDVYVPEGRDAESLPESIKNEIRRQVKGQS
Ga0209180_100158657F001545GAGVGVWHGTPYQVASVSSTANGVTVACGPAGKHTTYPKTGHRHTKDPSSGTRTWYERQVLSDVTLAQPLQVIAFSGAKPPAWAKPHADRPSHDSFTFQALADGHVRLALVGVREADDAVIVVTKQAATAPRLFRRYAPNVLLWTV
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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