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_10000027

Scaffold Ga0207708_10000027


Overview

Basic Information
Taxon OID3300026075 Open in IMG/M
Scaffold IDGa0207708_10000027 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)166457
Total Scaffold Genes159 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)92 (57.86%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

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

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?
F069314Metagenome124Y
F094358Metagenome106Y

Sequences

Protein IDFamilyRBSSequence
Ga0207708_1000002712F069314N/AVSGTGKRIEFLARAIVNRLEDRGLVEFRDAEAGIIVVAKALGENFATADAIENEARQRLGERASDQKIEDEMRRIAAERNFIL
Ga0207708_10000027124F094358AGGAGMSVDLDGLQVAYLGVALAHYLDLETGDILDLPLEGDAPGDESRFLRIPTRTPESETEDRRLFVEKLEVSPMRNHLAVLIDDPHSFRATIAEDLRVQRMFFNFKNDQATRAIEAWLASEGITGA
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Institute for Fundamental Biomedical Research
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