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_10000010

Scaffold Ga0207708_10000010


Overview

Basic Information
Taxon OID3300026075 Open in IMG/M
Scaffold IDGa0207708_10000010 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)227178
Total Scaffold Genes221 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)130 (58.82%)
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
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?
F012395Metagenome / Metatranscriptome281Y
F043603Metagenome156Y
F065095Metagenome / Metatranscriptome128Y

Sequences

Protein IDFamilyRBSSequence
Ga0207708_1000001019F065095AGGAGMADQDQEKQSIERTIVRARDGVGDRIDELDRHLRTNLDPKTLATTWAPQLIAGGAVLGVLVGFGMPKIFRRVVTWGVPLAILAVTIKNARESEDLIGLS
Ga0207708_1000001023F012395AGGAMRFDWINILTTVIFVSIVVTLILAVASYFAYKVREARRPKTAAELRQEGEMKAFFTPYQP
Ga0207708_1000001044F043603AGGGGGMNNIAQTRTTRYEVALSSTYVLPGLLAVNTVALLALDRLGGVPEWIRTAAALFLSF
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