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 Ga0070707_100004615

Scaffold Ga0070707_100004615


Overview

Basic Information
Taxon OID3300005468 Open in IMG/M
Scaffold IDGa0070707_100004615 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-2 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)12890
Total Scaffold Genes21 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (61.90%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

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

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?
F002993Metagenome / Metatranscriptome514N
F006078Metagenome382Y
F014244Metagenome / Metatranscriptome264N
F028751Metagenome / Metatranscriptome190Y

Sequences

Protein IDFamilyRBSSequence
Ga0070707_10000461513F002993AGGMAYGLAEGFRKTAVRLGGKKKSQAVVIATFGNHFTLNDALEIFRKEGLTFETEKGHIVKIFLDKNTKERAEQVRSIIRENFGYVEPL*
Ga0070707_10000461516F028751N/AMTRKRVLVTLSVPERRNKAAQALIIAGLVFLIAIPVGATAALTTSRGQNGSKLVPNCLALRPSQASVIAGGSGLILFSCGGGPALTVGKSDHFRPSFALPTGYTDLRIVSHGPGVTDCSNSPILVSGQLFDLTGPGGFDYCAGYANAPNTGLASFKVVWSK*
Ga0070707_1000046158F006078GGAGMKALKTATLGAVSPLEPMVKVASQSVFYALHTRDGNCESRCGASQTRVAEIVFGVEIVEWDLCFGCLSQTGFLEYFNSLPFATPREAEEVKILLGISNEAFGTQNRAAPI*
Ga0070707_1000046159F014244N/AMVAFGEQTYTLLSEEARARGITIQELLRAVVIPDWFKAKYEPVPRQNPIIERRTREEEAVVHSFSNKLRY*
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