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 Ga0207701_10041730

Scaffold Ga0207701_10041730


Overview

Basic Information
Taxon OID3300025930 Open in IMG/M
Scaffold IDGa0207701_10041730 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere bulk soil microbial communities from Kellogg Biological Station, Michigan, USA, with PhiX - S5 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4261
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → unclassified Rhodospirillales → Rhodospirillales bacterium 69-11(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Grasslands → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameKellogg Biological Station, Michigan, USA
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F020724Metagenome / Metatranscriptome222Y
F039366Metagenome / Metatranscriptome164Y
F042463Metagenome / Metatranscriptome158Y

Sequences

Protein IDFamilyRBSSequence
Ga0207701_100417301F020724AGGCGGMARLATVLDAVSDASLEIGIVQRPVTNIVGTADQDIAQMTALLQNVADELLIDPPYRDQLGDGNWLIDTGGVVRKSRPTADSDIILFDPRLAVDGLKYRFLKAKGLEYGEEQRDFIVR
Ga0207701_100417305F042463GGAGGVPVYVLYEGRLIEKRYRPSPSQHAASELPAPAVQSFEAYESPVETGTISSHRQREKDLHSSGSYDPRDTPASFRSAQNGRRHPR
Ga0207701_100417306F039366N/AMSGSARPNDQMHLPGLGVPVDPWTGFVLPPVIVERLKKLKEAERQFRLVLHELDGTTEGSIPGNRSMKFAFDRIEEAKFWAYDAILGG

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