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 Ga0268266_10540257

Scaffold Ga0268266_10540257


Overview

Basic Information
Taxon OID3300028379 Open in IMG/M
Scaffold IDGa0268266_10540257 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS S1-3 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1116
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Soil → Unclassified → Switchgrass 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?
F059859Metagenome133N
F095095Metagenome / Metatranscriptome105Y

Sequences

Protein IDFamilyRBSSequence
Ga0268266_105402572F059859AGGGGGMERITKFFTSLGGVLTSLAAIVGGVVALYVAFGGGDKSSNTPPPPAVTTTSNAALEDWRSDAESICRDADSQVIALGPSPTVTDDSGTRMTWLENAIPIVATATNQLRALEKPAEAQADIDRLLDTMDKVTDSAQTMINAYQAGDIETTNTARLELQGAIDDMQRQMAELGLKRCLTI
Ga0268266_105402574F095095GGAGGMAEPRTETILYDADGNRTDDESVAVRGEVVEVDDAGRVVARHPDLDWEVDPI
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