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 Ga0207646_10000056

Scaffold Ga0207646_10000056


Overview

Basic Information
Taxon OID3300025922 Open in IMG/M
Scaffold IDGa0207646_10000056 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-2 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)158385
Total Scaffold Genes134 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)103 (76.87%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

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?
F000705Metagenome / Metatranscriptome927Y
F012517Metagenome / Metatranscriptome280Y
F016894Metagenome / Metatranscriptome244Y
F030843Metagenome / Metatranscriptome184Y
F037845Metagenome / Metatranscriptome167N

Sequences

Protein IDFamilyRBSSequence
Ga0207646_10000056124F012517GAGGMGVSITPPGKARIVPCPECRDVPGLSCYECRGQGRLLQRACPLCGDLAWDYVNGIDDRQGMACRISCGYTWSADDPGWRAQVLPG
Ga0207646_1000005621F030843AGGVNQSQLLPVLVDVNNIETRDPPRRPAAPRYLRGPRRKALAALGLSGLALVIFGRLTLSTLLVIAAVGGIVAAARRYLPKK
Ga0207646_1000005624F037845AGGAGMRPLSFIGVCLTPLLLLLGAAGTPAAASTSVSVTIQSTVMIGLHTGMWSASGGISDSGTLVDVSDHLVGNGQIHVVRNVTGSQGTFTLRIDGSVTGVQPDGSIDFTDLWVVIAGTGGYAELRGQGTGSAVLAHGVVTETLTGSVHFD
Ga0207646_1000005625F016894AGGGGGMRKRNIVLSLAAAPAVAVLISSCAAAAQNVAHSNLTMQCAENLTGLDVTNGGVAGTGHCTITGMLHDSGPDTDYRTQNGTTALIRRVVTGAKGTITFVITIHLANGGGEPWTITSGTKAYAKLHGRGYQVVDNYQGSPATFVLKGTVSQARA
Ga0207646_1000005645F000705GGAGGVNANDAMLTELATAQSGSMVADNAPNAPTNSSFALVVEAVAGSALGSSGAPYTLTISAIDLTAVSQGWPTQILHQAFDTASGWKLSGTGPDYECTQTFPITVPGGGPGGPLADHTLQFVASLVSQGAQIASIIHSDPFVIV
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