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 Ga0070708_100001359

Scaffold Ga0070708_100001359


Overview

Basic Information
Taxon OID3300005445 Open in IMG/M
Scaffold IDGa0070708_100001359 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-3 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)18662
Total Scaffold Genes24 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)17 (70.83%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn, Switchgrass And Miscanthus 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?
F004910Metagenome / Metatranscriptome419Y
F005165Metagenome / Metatranscriptome410Y
F007778Metagenome / Metatranscriptome345Y
F022989Metagenome / Metatranscriptome212Y
F027041Metagenome / Metatranscriptome196Y

Sequences

Protein IDFamilyRBSSequence
Ga0070708_1000013592F027041AGGAGMHRPPRNYYQIYRVDHKRNQEQMGAEVEGLRETEELVEKYLRTMSPSEKKAEISYYRSTVSSSVPKMFGLSRVS*
Ga0070708_1000013593F004910GGAGMAISQKLVDPYRETKMPTSHSWQESYQAALLETDWTKMQDRIQTAESEIHKRRLVLSQDHGGTPEEREALANAMSGLRVLRMDATSWLERQNLGGTLTTKLRSQISENK*
Ga0070708_1000013594F005165AGGAGMSDINNSAHPQWRQLCQTALFELNPVKLLERIARARNAVLDRIEDGHSKSPNGEQAALREALATLDSLRRITERQNGYQSKAS*
Ga0070708_1000013597F007778AGGAGGMDAKCSWQELYKTALLETDWLKIEEHIQVAEKGIRGRLHEFSMNHGGTPEENRAIEDALSGLNVLRNDVAAWQQSKQAG*
Ga0070708_1000013598F022989GAGMSSSLEYRIGLLTDQATAAKTQSELDAILPELKAAIRDHIRYLRAIAVEKIPEAYGTQSSSVA*
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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