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 Ga0209701_10131800

Scaffold Ga0209701_10131800


Overview

Basic Information
Taxon OID3300027862 Open in IMG/M
Scaffold IDGa0209701_10131800 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - CZOApr15con2H3.8 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1540
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
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 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?
F014300Metagenome264Y
F029840Metagenome / Metatranscriptome187Y
F096941Metagenome104Y

Sequences

Protein IDFamilyRBSSequence
Ga0209701_101318001F096941N/AGWMKLASTLEQRGVRVLWVSRDPIEITRNYCTKHGIRLSDALADPPYRTFAQLGLARVPNTVLVGAGGIVEKVWAGRLDQAGWNTMFAYFGERQETASPLRSQVGANATGCGSELSQTSAKSCK
Ga0209701_101318002F029840AGGAGMLRRIPKVLLLVALLAAFAASSAPVFGGSHICRCFLDTGGRNLVPPGGCHFNQLTLQCVNTSCPGSCF
Ga0209701_101318003F029840AGGAGMLRRIPKVLLLVALLATFVVSSAPVFGGSHICRCFLDTGGRNLVPPGGCHLDQTTLQCVNTSCRGSCF
Ga0209701_101318004F014300AGGAGGMDRLKKRFVMLLVPGALIVFASFLAAQGPPNPCANVCWQNYLNAVHACHGDPACLANARAAALACVQGCGLPR
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Institute for Fundamental Biomedical Research
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