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 Ga0209169_10019012

Scaffold Ga0209169_10019012


Overview

Basic Information
Taxon OID3300027879 Open in IMG/M
Scaffold IDGa0209169_10019012 Open in IMG/M
Source Dataset NameWarmed soil microbial communities from the Hubbard Brook experimental Forest, New Hampshire - Hubbard Brook CCASE Soil Metagenome WRM 4 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3724
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Forest Soil → Soil → Soil Microbial Communities From The Hubbard Brook Experimental Forest, New Hampshire, Under Manipulated Climate Change Conditions.

Source Dataset Sampling Location
Location NameUSA: New Hampshire, Hubbard Brook experimental Forest
CoordinatesLat. (o)Long. (o)Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006676Metagenome / Metatranscriptome367Y
F027726Metagenome / Metatranscriptome193Y

Sequences

Protein IDFamilyRBSSequence
Ga0209169_100190121F027726GGAGGMPRWSQVPLVRQIQLVARSKWARPTAAVVTLLLVLPVAALAQGSPFDTGFN
Ga0209169_100190124F006676GAGMEEGPDPKGKKANQPFSWLPQIDQVLVVGMKYGPKGTHEAVKKLRQIAPELSPAQIWHRMRHLREKDHGKRPGPIDWSEDAIETLRDGYRSGGRKKAAAIKTVRALYPGLSGYAVSRFARSQGWLEGERGTKKNDGRRPWTREEEQELFVRAGYDSVKEIARKLRRSEQSVRFRLKGRSISARVTDGWSLRRLQQTLHVSYRRLQHLIGNGLLKVRDPRVSVISLAEWCEKHRTTLQPGVEDKIAADLWKEKNGHSWGRVAKLLGVTAAEVGKWVANGDLKVVDPSVTDRAFEAFCRQHGAELNLQLMDPEVARWLIAEYGLKIVAPQLTSVPFSQKQALVVRLCPKCKRDIRGNVYFRHVRSCRGAMSQRDSGRTGVNQQAS
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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