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 Ga0209588_1000877

Scaffold Ga0209588_1000877


Overview

Basic Information
Taxon OID3300027671 Open in IMG/M
Scaffold IDGa0209588_1000877 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - Rivendell_Oct2014_Saprolite_2_DNA_Rhizosphere_1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)7651
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (70.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Vadose Zone Soil → Vadose Zone Soil And Rhizosphere Microbial Communities From The Eel River Critical Zone Observatory, Northern California To Study Diel Carbon Cycling

Source Dataset Sampling Location
Location NameUSA: California, Eel River Critical Zone Observatory
CoordinatesLat. (o)39.7291Long. (o)-123.6419Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000417Metagenome / Metatranscriptome1165Y
F001603Metagenome / Metatranscriptome664Y
F008204Metagenome337Y
F101927Metagenome / Metatranscriptome102Y

Sequences

Protein IDFamilyRBSSequence
Ga0209588_10008771F101927N/AMNHLLHPTVTESKPAELRGLREDISLSPLLRKDVASNGPAWLPLLLVLGAIATVAYADHRVVSLSLIYLYILPLSVGAIFLR
Ga0209588_10008773F008204GAGGMRLGGIVRMVLFGFLVPGVAAQMSRQSPPSPERGTEQSPRSSQAKPQVELRRFSLLSGASIDVSPDWIEREQMPLPPSPRLAPFAPQVTFLEFMTLENPKMHSALRIATTTNPFLGGDEVALDVQMHGAAGSGNGLADYLFYFFFSPPRDCLDGGSEAYKKAKRQAELPDQTTISPDLSVRADCKHPPTLAGFYSSQLSPGVLFRVTNGVELAGGIYPEFYLTPMEKVEANGLTFYVFEAQGRMQLDLATVDHFNLPDEMQGWQADFFWAVGAPSPFPFFRDPQRKNVPVIHVAYAGIGLEPNKRDIFMRLLRQVHSR
Ga0209588_10008777F000417AGGMIRHLCISVCLALVSAAIPMRAANKPRAGTDSRNPVVWTNDDLEKLHSLGLISIVGRMDEGQLASASAPAPYVETQDPEWYAEQAAQLRDELERRRAQLHEYQKALEDARSLRETTRGINVDEGDIGITPEAGIEFLQQRLNEAQMGLDTLEDLARRNDIPPGTLRGQ
Ga0209588_10008779F001603GAGGMFTEAIDKGQASHKGTGRHQLLSLFIALVFALTFYASNAHAQIVGALEVNIPFQFHAGNTKLPPGNYVIRMLDDTDLTVMEITSADGSTSALFEVQSAEANSAPAKSELIFNKYGNRYFLAKLFDEGNPSGSQVLKSRYEQRISQATAEPQTRVPAHRRGKKGN

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