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 Ga0105238_10000010

Scaffold Ga0105238_10000010


Overview

Basic Information
Taxon OID3300009551 Open in IMG/M
Scaffold IDGa0105238_10000010 Open in IMG/M
Source Dataset NameCorn rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS C3-4 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)271274
Total Scaffold Genes287 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)149 (51.92%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (50.00%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Corn Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameMichigan, USA
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002548Metagenome / Metatranscriptome549Y
F003710Metagenome / Metatranscriptome473Y
F010067Metagenome309Y
F013826Metagenome / Metatranscriptome268Y
F022212Metagenome215Y
F043999Metagenome / Metatranscriptome155Y

Sequences

Protein IDFamilyRBSSequence
Ga0105238_10000010193F003710N/AMRVMLIKGMTEQEIRVLQEFRRVAAESLGVAAIKAIKHPAGGGEGPAFSLVDKGMLTTDAARENFALTAKAKEFLSYDPKPEFEEAGSAAEEPVVVE*
Ga0105238_10000010226F002548GAGMGKYAMDSTMEVRSPIFERRRLRRIRMIVELTLNLVGSDMTVSHREARCLVRCARKAILELHPGFEQRYERIVLPYFERMLASRWPHEQAFDDDCCDVVN*
Ga0105238_10000010229F022212GGAGMRRFLVLLALAAVSCGGGSPDASDNSSEWLHVLRHKQAASAPNAPVHAKQAYADTLGAFVVKHPTHSRAREVYQHIQLDFAHELAVVGRHQDAIRIYRAILTHDPKNDAALKGLADSVDHLAVSHEKLLALEKGMSQRDVAHLLGKPIPGWQVTNDRPDSTIESWYYRRTGGGIAGVYFRDGVLFAAEENSQAKIAPLMRQ*
Ga0105238_10000010247F043999N/AMEKPVRRTLLPGVSDAGAPPPVVIDSRVVVARARRRAIVRDVIDLLLLVCVDGLFLRWNHAHVPFLDRHDSLLVLLALNAMLVGYVWLARALPRWTARKVAATWCLAERTRFFRS*
Ga0105238_1000001038F013826AGGAGGMAVCWRCPSCSEVSCEDDVNATGNPVACDHCERPFPQQETLCTVCDTPNPWSRRDTLHFLCRECGTAQTYFSHLPMAG*
Ga0105238_1000001074F010067N/AMTEDDQRSDEARESFAYFSNEYAQALQAFKTIEGQSSTLLLMGVSDELRGFIDQFITMASGTKALAEERDETHFAEWFGELIRKAEVLRGEIVPQ*

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