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 Ga0207644_10078353

Scaffold Ga0207644_10078353


Overview

Basic Information
Taxon OID3300025931 Open in IMG/M
Scaffold IDGa0207644_10078353 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS S7-3 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2436
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes → unclassified Gemmatimonadetes → Gemmatimonadetes bacterium(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?
F036344Metagenome / Metatranscriptome170Y
F064075Metagenome129N

Sequences

Protein IDFamilyRBSSequence
Ga0207644_100783531F064075N/AMRPHPLVTAALAFTVLSATTTGAQASAQSTQSSAQSSPPCHRCLNGFRFVPSSVVDQPFTNTSFENATGGGMALNLKVPVRNLAGDTAKTLTGTIGFFLLDFEYQKSIAKWLALRVGVNGIGRLGTSLEALIASGLSAAMGGSIGATVPVWSKPNLLISAVADLKNNKQWDVDPYTFVKDVVDSGYTSDAKAVLLGSERVNRWSFGLRGAWAVKPWMGLTANIEPGGADGDVSGNKSLNTFGALAGFDLAKLWNVPISTSLAYRVRTGSGKSGNISGGYRSAQLGVFYNALSSVLIGGDFFYSTIRVSGGTIPDLDAVQFRLVTHIDF
Ga0207644_100783532F036344GGAGVSEQMFLIEARRMRRGDQPAGIARFIVTGGSRYAALSKLRIYYDTSDIDSLTATPVSGIIPIAGALVHDMRRATPEAEAPQAQDKPDAGDDDEPWKRSA
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