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_100000543

Scaffold Ga0070707_100000543


Overview

Basic Information
Taxon OID3300005468 Open in IMG/M
Scaffold IDGa0070707_100000543 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)37715
Total Scaffold Genes42 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)32 (76.19%)
Novel Protein Genes8 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)8 (100.00%)
Associated Families8

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?
F003458Metagenome485Y
F012009Metagenome / Metatranscriptome284Y
F027149Metagenome / Metatranscriptome195N
F028476Metagenome191Y
F029697Metagenome / Metatranscriptome187Y
F043312Metagenome / Metatranscriptome156N
F069956Metagenome / Metatranscriptome123N
F091786Metagenome107N

Sequences

Protein IDFamilyRBSSequence
Ga0070707_10000054314F012009GAGGLSPARSAVRPVTPGSVKILMMVEAGVIGFLAYWIVSEYVFNAYFHDYVDQLLGTHGTTFTAALGLGVGLAGSAIAATLYRNLQHAKSRLETIAAPKIRGAVEKILSNLPTVEEPQRASVTRAPALSSIAPLSPSQVIAQVPVSREEEKKSNDVKS*
Ga0070707_10000054317F029697GAGGMLLMGLILLIFGVIAEAMYIIANKVAYSGIVADAYLTGGVVFIMIGFVLMLASVKIPKLRVP*
Ga0070707_10000054318F043312AGGMRTPNITLIHETISICFDQVLTSMGEMTKRMTYDFLARRGISREDLSSRFEDVEALLVQLYGQGGRSVMIGTLAKLCEEYSIPLNLGYSDTLSNRMSQLSEDILMRKLTPKHFRKDVDTTTFEDNTGSYADWTD*
Ga0070707_10000054319F069956GGAGVIQVSLSNTLKSVGDDCLASVQSLLGGEREPVESLVAHLGDIDSVLDELFGKFSKIIKHITILQASSQLKIDPPSLGGSLFWMVEELRSTLWKGQS*
Ga0070707_10000054332F028476AGGMKLVTILIDWSKLKPEYVPGKCNIGRRGRAIRLTTGVVLIAISIILGILVLNPVNRWLSLAMVFPAYVGLLACLEGSTSFCVLHATRGTYDLNEPQGFASKRSKTLQKVVSEDWKKLDRRKALKMHLEALAGAVLLAVLLSLA*
Ga0070707_10000054338F003458GAGGMAESRIPPGASLLLIGSGLYWILSSQLISSFTVLSPGLFQAAALGTSLIMIVGIISATVGLWIVKVDFEELRDLFARRDGWIFTVPLALVAADIYLTLIVLSTNSQIVELNPFVSSAIAIGATALVPFIISYLALSQGLGLFMLRIGSYLFGPLKSARYLPFVSICGAAAFGPASNLVLFLDPNAGLIAYVFGALSCGVLSVILFTRVDRSQESPR*
Ga0070707_1000005434F091786GGAMRYMARTVTKSQASKRPVKSAKALSRVRKRSVSHTRASPRVSTRKTVSRTGHQQISDTTYIFECTRPGCGYRIPREEKAELGSVRFDLKCPKCHHREFKCLGKGDLPASFELPVPTTNIDFDSIRPVDLGSN*
Ga0070707_1000005438F027149GAGGMSEVTLLPGNIVECAWCKDSKPISETTWFMPEPGERSVRLCSFCYEEARKQVRLLRFVRNRGEFPVEAAS*
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