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 Ga0209076_1000434

Scaffold Ga0209076_1000434


Overview

Basic Information
Taxon OID3300027643 Open in IMG/M
Scaffold IDGa0209076_1000434 Open in IMG/M
Source Dataset NameVadose zone soil and rhizosphere microbial communities from the Eel River Critical Zone Observatory, Northern California to study diel carbon cycling - Rivendell_Oct2014_Saprolite_2_DNA_Bulk_3 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)7021
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (75.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria(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 NameEel River Critical Zone Observatory, California, USA
CoordinatesLat. (o)39.7291Long. (o)-123.6419Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000232Metagenome / Metatranscriptome1513Y
F002607Metagenome / Metatranscriptome543Y
F003116Metagenome / Metatranscriptome506Y

Sequences

Protein IDFamilyRBSSequence
Ga0209076_10004341F002607AGGAVSDMTLKYPLWQNHYLQAMAETHPELLKGKISAAEQVVSLRLRQLASTIDDYEEQIALAAALKSLKVLKEK
Ga0209076_10004346F000232N/AMKHPRQNKRAPQTHPSALAVPSYHRILVKHGLIEKTLSIPDAYKVFLKVGADPEVQKLRRKVEHGSKIKHVPALYLATAMALQGMTKHELDALKLRIEKKAAIP
Ga0209076_10004347F003116GGAGMASLAGTTLVWQGSALDRIWSLNPHAHKEPAPFGRVAGIAFLLLAATLTVACVCWLKRRPWGWRLAVAIIATQVLGNLVNIFMGDLLRGGIGFLIAGALLFYLLRPRLRSAFASGESSIG
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