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 Ga0209488_10002277

Scaffold Ga0209488_10002277


Overview

Basic Information
Taxon OID3300027903 Open in IMG/M
Scaffold IDGa0209488_10002277 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_Bulk_2 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)15862
Total Scaffold Genes25 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)16 (64.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
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?
F001175Metagenome / Metatranscriptome756Y
F001699Metagenome / Metatranscriptome649Y
F018903Metagenome / Metatranscriptome232Y

Sequences

Protein IDFamilyRBSSequence
Ga0209488_1000227718F001699GAGMTWLRHFFVALIPLVVGFGTSLAFALSQDKCGRLVGPLFAPKCHWIQLEYQLGFQMGGTLLGCLIAAVLGASLERRSRRAAERAHINQGVSA
Ga0209488_1000227722F001175GGAGMRAVMCGVVLVVAACGPPKPCSGHQFDRLRRYSLPYAGHWVVARGDTLTFPAAPGMSDRFRLGEITLDTATVVVGRDCMFRGQIVFRAPRADTLAVTWFGQPEQAIVSGWPADLGPFAGLSLAWAGRDSLSGAILLDSKLGVQARPGMTARFVAGRSQRLSSAP
Ga0209488_1000227723F018903N/AMKSILWLVPLCILVACGSDKSSQTVNRDTLTERQKDSILANSKIPNARAVGRAMNAADSMSARIRASDTVARDTTEF
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Institute for Fundamental Biomedical Research
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