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 Ga0207684_10004290

Scaffold Ga0207684_10004290


Overview

Basic Information
Taxon OID3300025910 Open in IMG/M
Scaffold IDGa0207684_10004290 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-1 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)13510
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)12 (70.59%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia(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?
F009474Metagenome / Metatranscriptome317Y
F016894Metagenome / Metatranscriptome244Y
F037845Metagenome / Metatranscriptome167N

Sequences

Protein IDFamilyRBSSequence
Ga0207684_100042907F016894AGGGGGMRKRNIVLSLAAAPAVAVLISSCAAAAQNVAHSNLTMQCAENLTGLDVTNGGVAGTGHCTITGMLHDSGPDTDYRTQNGTTALIRRVVTGAKGTITFMITIHLANGGGEPWTITSGTKAYAKLHGRGYQVVDNYQGSPATFVLKGTVSQARA
Ga0207684_100042908F037845AGGAGMRPLSFIGVCLTPLLLLLGAAGTPAAASTSVSVTIQSAVMIGLHTGTWSASGGISDSGTLVDVSDHLVGNGQIHVVRNVTGSQGTFTLRIDGSVTGVQPDGSIDFTDLWVVIAGTGGYAELRGQGTGSAVLAHGVVTETLTGSVHFD
Ga0207684_100042909F009474GGAGGMTCVNAGPRAVAAEGVIAVRRRLGVIVAFGALLGVLGGVVTASPALAGRGPKWQPPTPGGPPFTLPALYCGFKLRVAFPVNKEFTKVLKTADGSMTFLFTGAVTASYTNLQTGKTITVPENGPGKFFGHPDGSFTEVHTGRNGPFILSPADATRFGLPTVSVTAGKLTFSISANHVLTSLSLKGHVLVNVCAALS
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