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 Ga0070698_100000142

Scaffold Ga0070698_100000142


Overview

Basic Information
Taxon OID3300005471 Open in IMG/M
Scaffold IDGa0070698_100000142 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K1-50-2 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)64937
Total Scaffold Genes66 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)41 (62.12%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Associated Families6

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?
F004003Metagenome457Y
F004186Metagenome449Y
F004349Metagenome / Metatranscriptome442Y
F025117Metagenome / Metatranscriptome203Y
F028755Metagenome190N
F047580Metagenome / Metatranscriptome149Y

Sequences

Protein IDFamilyRBSSequence
Ga0070698_10000014229F025117GAGGMNDYYSLYTWAMDKQAHLEREATNRRLVRHSRYVNTHENARPRWPFARRRDDERKAA*
Ga0070698_10000014232F004186N/AMVAALTAACGVPTPAAPPTAKEVLAKPQQSDLKDAHFNVTGKIADNGQTVELVGDGALVYKPKLAGRFKFTTNVGGQTVAILEISVDGMNYGMTPASPKWVATKSTSGIDPSAFAGASDQKYVGEENLPQGKAWHASAKDKDGNAFDAYIRESNGYPIKYVETQSGGQNITLTFDTYNTGETITAPPPDQIQAG*
Ga0070698_10000014233F004003GGAVIVRVIRIATAMVSVGLLAACGGPASPLGPPSAKDILSKPLHANLMDAHFLVSGKFVSTSPGEVSVDVHGDGALVYKKPGAGRFKFETMVAGQKVSYEDISLNGIDYTFVVPGNGKWTAKTTASGLGRDSFTGASDFQYVGEENLPNGKTWHAKAKDKDGNQFDGWIRESDGYPLKYEITQQGNALVLSFDKYNTGESITAPPASQVVQG*
Ga0070698_10000014234F004349AGGAVKKRSWLVLAISALVVAGCGNSAGAPAKPPTAQEILARPDSANVKDGHFSLVAHIVSGNITFDATGDGIIVVKPQQASRFTMLTTISGQSLKFEEIIIGGKEYDLSPDNPRWTVKPSTNSSNPSSFKGTDATYLGEETLPQGKAWHVKAKDDNGNPFEAWVRETDGYPLKYASTMQGSTFTATFDRFNTGQTVSAPPASDIQQ*
Ga0070698_10000014246F047580AGGAGGVSRRLKRQLGKAPGGRGIEPSPHPRAVARTPLQRLNRILLIGGSGLAIGAVLLAVLSPRFDPVALGINLLAIGLGLLMGKGIGRFMFRRVLPTPNK*
Ga0070698_10000014265F028755AGGMRSLMNFGLGCSGCVTLLGILLSLTLVGIHLGFPLVVIGVLGLIGFGVGRAVFREPPQY*

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