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 Ga0207686_10000004

Scaffold Ga0207686_10000004


Overview

Basic Information
Taxon OID3300025934 Open in IMG/M
Scaffold IDGa0207686_10000004 Open in IMG/M
Source Dataset NameMiscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS M2-4 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)349251
Total Scaffold Genes254 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)180 (70.87%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Miscanthus 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?
F017247Metagenome242Y
F018453Metagenome / Metatranscriptome235Y
F059718Metagenome133Y

Sequences

Protein IDFamilyRBSSequence
Ga0207686_10000004106F017247GGAGMKIDMKTQIPNLIVYSALYVALFGISIWLLVFHPESPTNWLLYPMMIWSVLAGLVKFALHLRKRHQQSL
Ga0207686_10000004163F018453AGGMPLSENGMKALRLLLREELEAQVQPFRHEIGRRFDEVATQMDGLYQRDEKREQEYLSIREQIRCLEAKFA
Ga0207686_1000000429F059718AGGAGGMAIPSLFWRSVNLASEAIESDNDVWGVIKQQMEAVGLSNVKKNPSDVNGHTQDTIVATTFAKLGHKSYLLFIMAAGDHGKTLGDKLGNKLAKVKFL
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