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 Ga0070707_100004263

Scaffold Ga0070707_100004263


Overview

Basic Information
Taxon OID3300005468 Open in IMG/M
Scaffold IDGa0070707_100004263 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-2 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)13390
Total Scaffold Genes21 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)16 (76.19%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(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?
F001545Metagenome / Metatranscriptome673Y
F001681Metagenome / Metatranscriptome652Y
F001901Metagenome / Metatranscriptome620Y
F004518Metagenome434Y

Sequences

Protein IDFamilyRBSSequence
Ga0070707_10000426318F001545GAGVGVWHGTPYQVASVSSTADGVIVACGPAGKHTTYPKTGHRHTKDPSSGTSSWHQRHVLSDVTLGQPLQVIAFSGARPPAWAKPHADRPSHDSFTFQALADGHVRLALVGVREADDAVIVVTKQAATAPRLFRRYAPNVLMWTVASDKA*
Ga0070707_10000426319F001681GGCGGLSGVGSMKTLRLQRDPDGFFLWHPEYAPWLVGRHSPGANPNDRAFFDPNTGEIVWSSRDGMKDYEMDELAARHLVGELVEMPQCESEREVEAWFLERGFKVEWI*
Ga0070707_10000426320F001901GGAGGMTRRKQPWGQQRAWIVPADGSPPQELPQQMVGHKLISWPGTMPEREPAEPAKYLASKDYYHHHVLNPEGVSVYVPEGRDAESLPESIKNEIRRQLKGQS*
Ga0070707_1000042633F004518AGCAGMPDPWPFGLDLPEGLPPWLAAFVLEAQRETDTLGENGAEQAAAARLALLRKLLAAAAAHLDAEIDIHEAAREKGVCEETIRRAVRGGRIPDRRANPKGRHRVRRGDLDGVADSPSRPYDPSADAQSIAQLRRKL*
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