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 Ga0207708_10424871

Scaffold Ga0207708_10424871


Overview

Basic Information
Taxon OID3300026075 Open in IMG/M
Scaffold IDGa0207708_10424871 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-10-1 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1102
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameUSA: Michigan: Kellogg Biological Station
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F011014Metagenome / Metatranscriptome296Y
F031305Metagenome183Y

Sequences

Protein IDFamilyRBSSequence
Ga0207708_104248712F011014GGGGGMSAPPRFVVCEDGSEYLDRFTRFLGDDFVFIATRDFAEARAAAAGADGLLLDLDFRRTPPDRLVDERGPAATDLDDDRRRRLSETQGILILRQLRAAGVTLPAILFADVDDRERARFLERTLAPLTIGSSRLGIRDIAALLRTALTRR
Ga0207708_104248713F031305N/AGGWTAPALALADLAVDFPIEHDALAAIFMNLLRNAQAAVAGQEDGRVIVRIDRARDVTGRQEVSLALGDSAPAPLTLDIIEARESGRGLAIVRDLVREWRGHLVVRPEAVPFTKVVGACFPL

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