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 Ga0070671_100000451

Scaffold Ga0070671_100000451


Overview

Basic Information
Taxon OID3300005355 Open in IMG/M
Scaffold IDGa0070671_100000451 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS S7-3 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)28559
Total Scaffold Genes46 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)33 (71.74%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales(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?
F025065Metagenome203N
F031549Metagenome / Metatranscriptome182Y
F039688Metagenome163Y
F095638Metagenome105N
F101253Metagenome102N

Sequences

Protein IDFamilyRBSSequence
Ga0070671_10000045113F095638N/AMGGSMTSHHAPHDHDYDGRPPVGWQDDDVLLERLCRCHPERIPDELRARFQTDYMRARAPLVAAALSLPAA*
Ga0070671_10000045117F039688GGAGMKGYVIMAKENYPGASIKEICRCNGNAQDIRNALADYTVTGSQGTRIYKFNHVEILELSARKPKEERAQMKKPHKNIRCIPASEEPKIIANLQTVFAQIDAMRAGNGEQTAPQGQAAQDRPALSQRKSEAEQP*
Ga0070671_1000004512F101253AGGAGGMSGPNLGGKALLRRRQMKFHPDEVRSKIQAIRLVDVLHQFIFSEIDKDGRKLADLSMAQVRAIDCLLKKVVPDLTRTLISADVNVRYVAELPPVLSREEWLRKYANPEPPRMIEGTVTNGGGDDGKGTLQ*
Ga0070671_10000045123F025065AGGAGGMTPKQHFRSLQIRLEIAEFGMGMPLDRERVKELREQVEQARKDAELDTMTSDGTEP*
Ga0070671_1000004518F031549GGTGGMTDTYSTMPDDETTEGPQPPQEEASEPGEGKKQSQEAANYREGNPQRSCGLCGHFDSKSHSCDVVEGDISPFGFSDLYLRQDNPFREGEKEGFQGGKKVAAIAPAVGPPGLMAIGRQSYGGE*
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