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 Ga0207653_10000024

Scaffold Ga0207653_10000024


Overview

Basic Information
Taxon OID3300025885 Open in IMG/M
Scaffold IDGa0207653_10000024 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-25-1 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)117069
Total Scaffold Genes103 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)67 (65.05%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(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?
F002369Metagenome / Metatranscriptome566Y
F005735Metagenome / Metatranscriptome391Y
F035211Metagenome / Metatranscriptome172Y
F093595Metagenome106Y

Sequences

Protein IDFamilyRBSSequence
Ga0207653_1000002415F002369GGAVAVQKQTANQVRRIEELQGYVRTVDHVKKLVAELESNRAAKPKIINGICGNIARELSHMRQRALTANLGTLPDVAGQLAIVANRAGTGINMKVRALADGVNSMTIQLDQALKMAHEAPPEKDKEKDKGKENPPS
Ga0207653_1000002448F093595GGAGVASLKGWVVAGLLGCLALALAYLPPRGASSSGSPFFVGQSPSGTPARQRAKALAEEWRNADAAVRLLEDRPRVKGDSLRASPAIVFRGATLSSNSVRDVENVMDSVWRALGLGETKVRVTLAIELQRPYASVDAPTPLQDRVAYLAPDSTHRTDCIAYLPAGAYWTSFILGKRDAMQDRLGRFAQWLQAGLGPCAFYAAYGNPGRHVQSWLAARNWDVGLYLGSHGIAGERFSSLTILGDPRFPWFWDGVYSFPPATVACIAGRPSGCRAAVLAGAAEERMIPIPNVVLPERRWWRAQHLLPGERYLGDIARTVGRDRFLAFWTSGEPVDTALAAALKRPVGEWTADWERGFVQPIRLGPAAPLEGVVMALTIAVFAIVLVAGTASRRQIR
Ga0207653_1000002449F035211GGAMSRVLLLWCAATLAMSPLRGQDSVMARAHHRADSLLSSWREAQRLADVADSLEQVRATAGSDTIAVGALRIIANPSPLPLREAAERAWPAIDSLYGSVAAELTEHPYIFRAVDPDTAVRRTVLHVGAELPWDLDVHATSRILLTTVTPPRFDHAFADWLGATLRPTLRPGDERSAVYLQLVTVPSEAVRGCFLGDIVRCKDVLQIGDSSGVLARWYVTPAEREALVSGVFGDYFARGGTALSLQKCRRHQDDACTALLQSLPPGSLPRPLAPVARMVLVREALRAGGRDAYRRLVAHPDSPIETRLSNAAELDIDALVARWRELVLAARPVPLTFPWWASVAAVLWTAFFGFCALRSSRWRL
Ga0207653_100000248F005735GGAGMRFGIVAVLVVGALTLVGRNAEAQARGTLQATATVVDTRQGFEALSAVRQALTDSRIESHHAVETVAVITTARPATNPSAVVVTVDFSRN

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