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 Ga0193729_1000005

Scaffold Ga0193729_1000005


Overview

Basic Information
Taxon OID3300019887 Open in IMG/M
Scaffold IDGa0193729_1000005 Open in IMG/M
Source Dataset NameSoil microbial communities from a riparian zone of the East river system, Colorado, United States ? U1c2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)141850
Total Scaffold Genes152 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)89 (58.55%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (50.00%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Soil And Sediment Microbial Communities From The East River, Co, Usa

Source Dataset Sampling Location
Location NameUSA: East River, Colorado
CoordinatesLat. (o)38.9225Long. (o)-106.9538Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002362Metagenome / Metatranscriptome567Y
F009046Metagenome / Metatranscriptome324Y
F014469Metagenome / Metatranscriptome263Y
F015951Metagenome / Metatranscriptome251Y
F028844Metagenome / Metatranscriptome190Y
F034004Metagenome176Y

Sequences

Protein IDFamilyRBSSequence
Ga0193729_1000005103F034004N/AMGRMFGLVATLCSLALVGVLTMSSMSHNGPTAKSAKVAEAKATAAVSGLNFTTAAPQLEAYKAENGTYAGATLPPAFGVTVIRGDATSYCLQAGVGGAVQHFTGPGGTPAAGPC
Ga0193729_1000005143F014469AGGAGMHVLPLPFGLALALIPRREARKLRDDEPVRVRFEKQVHAREQILGDVKHLNAVRPIL
Ga0193729_100000521F009046N/AMAAILFLVAILGLLFAGRTQAQAVDGSKPLFSFQLWQLALALILPLVCAAADVPTIAKVVAVVSTGAAFSFSVFRARHVHDFDDLHF
Ga0193729_100000530F002362GGAVSDTGTWLARPRPARLAARPSRWATIRPVTASIWFYLFPLYILGGLLLVLGVFALLGRIQGGRYLKPIINFMMKLPLVGRLMKKASQAALERQNPDLASAVKKLERSGVARDPMRAQQALSRLSASERQAYMDATADQTENIAQNRQMRRQLERARKGKRR
Ga0193729_100000556F015951GGAGGMLQWKPKLIALLAVLVLVAAVSGQFTWDSFDQFTWF
Ga0193729_100000558F028844N/AMDVQITPEPTEDERRAILEALEEEGRAAAAPSQWRRAALGPGPEDEHGQAVAPPRQRRGAARA
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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