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 Ga0207711_10000011

Scaffold Ga0207711_10000011


Overview

Basic Information
Taxon OID3300025941 Open in IMG/M
Scaffold IDGa0207711_10000011 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS S3-4 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)518817
Total Scaffold Genes543 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)380 (69.98%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Switchgrass Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameMichigan, USA
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F047196Metagenome / Metatranscriptome150Y
F049823Metagenome146Y
F056088Metagenome / Metatranscriptome138Y
F064160Metagenome / Metatranscriptome129Y
F067624Metagenome / Metatranscriptome125Y

Sequences

Protein IDFamilyRBSSequence
Ga0207711_10000011126F067624GGAGGMRSIWTDSRLDDLNGRVTEIRDDVRELRGEVAALKRVLIQIGWGLAGTVGVGMLGLIGTVLALAWR
Ga0207711_10000011382F056088GGCGGMKFNEAAVFKWVVIVGAAGALIVAVTLLTRPLVGALLLLVIAVVGCVYGYRWSRRRWRDLGARK
Ga0207711_10000011432F064160GGAVKILFVPIVIVAFVLFLLVLGAIGFAVSFAVLAVLGRAWRLVSGGRSRGA
Ga0207711_10000011473F049823AGGAVPPRPVQGSFEVARGVIPQERIDDALRLLHLDLLQRGASAEELGEWLWGMHWFPHLKEREEIFALSESLPEEWRQGRPCEPQILLQFPHTGPEPEIEFHLDQEPPWAGDSTYLRIVGVPLSPWRANNGGLLVKTAGGPAPVEADPGDAIAMSPDLPHSGGVNLTGALRYGVYFRWLAEDGST
Ga0207711_10000011505F047196AGGAGMDHKTHPGYESPRVVDYGDLQELTAACLGGSGGDAYFPSGELAGYSVGPSNPAAECKSKP
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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