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 Ga0137408_1328923

Scaffold Ga0137408_1328923


Overview

Basic Information
Taxon OID3300019789 Open in IMG/M
Scaffold IDGa0137408_1328923 Open in IMG/M
Source Dataset NameVadose zone soil fungal communities from Angelo Coast Range Reserve, California, USA - CZOMad2_2_16fungal (PacBio error correction)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5880
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (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 → unclassified Acidobacteria → Acidobacteria bacterium(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
CoordinatesLat. (o)39.7291Long. (o)-123.6419Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F016890Metagenome / Metatranscriptome244Y
F030272Metagenome / Metatranscriptome186Y
F079284Metagenome116Y

Sequences

Protein IDFamilyRBSSequence
Ga0137408_13289235F016890N/AMARETYKQAYATAKLDLLQQLQKRDDLEQKIRKLKQTVKALGELCGAPPEEIDKLLLVEGFAIEAKPGFTESIRRLFRIHQTALSPIDVRDDLVKMGIGVGQVNLLSSIHTVLRRMAEAGEIEKTGDAKFRLPG
Ga0137408_13289236F030272GGAGMNKKTASLALLALLCVTTLFVFSQTSSQFPELDKNGKPLLPRPMPHLVYSPTDLAHSGVALPASVGGATPNTSIIRIGDATKMTVFASCTQNFDLVMTVYTADDQGQSNPNFIVYNSYIIATNMGSGAQQAFLASELAPTVTSGTLGAPVRLPQLAVSFFEKNDVATAGTCTDRVIIGY
Ga0137408_13289237F079284GGAGMKWTGEYIVDDTGQCRWHEGLRIQDEHMKSAYRKNSVIEFIIKTSAVMGVKVGIA
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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