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_1000032

Scaffold Ga0193729_1000032


Overview

Basic Information
Taxon OID3300019887 Open in IMG/M
Scaffold IDGa0193729_1000032 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)65942
Total Scaffold Genes68 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)43 (63.24%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (83.33%)
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?
F000399Metagenome / Metatranscriptome1182Y
F002080Metagenome / Metatranscriptome596Y
F029825Metagenome / Metatranscriptome187Y
F030937Metagenome / Metatranscriptome184Y
F034980Metagenome / Metatranscriptome173Y
F077125Metagenome117N

Sequences

Protein IDFamilyRBSSequence
Ga0193729_100003225F030937GGAMGGIDFTFALALGAFLLASWVDAKVGDSRPEAPAKRIGLCLLGALALQGSVGALYLVQAAGASQAGMLAAVLGLFLPALIFALLTGLWLLRTLADIAGVVRR
Ga0193729_100003240F077125GAGMNVTDIESLRERIGELVRERQDLRTTGASRRSLESNRVQLVRRQSELGRALIEEHIAAAI
Ga0193729_100003254F000399AGGAGGMAETVTPSLVHQFASMKSTEFGAAIEPKWKVADALMKQVRSAVEKEQLTPLDGARVISSIAATLFGYDEFILREISPETLLSAPARR
Ga0193729_100003256F029825N/AMRCQECGRESLDSRWSPLCPVCFEGLHHEQRRDQVRPPALELPAWTDPARLDAAFEKALGQELP
Ga0193729_100003259F034980GGAMVIDRAKAEKVRKVLGTKTLAATVDAALDEVLRLDARRRLMDRIRRDGGIGPSPEEVRRLRAPRMPPVPR
Ga0193729_10000326F002080AGGTGGMSDRGDKAKDVVHAVEHPVETARALEHEAEEGVSPRTPLIVVTGITIFLGVIFAILLAIALTLYFVYGGK
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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