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 Ga0070669_100098238

Scaffold Ga0070669_100098238


Overview

Basic Information
Taxon OID3300005353 Open in IMG/M
Scaffold IDGa0070669_100098238 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS S5-3 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2205
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → Rhodanobacteraceae → Rhodanobacter → Rhodanobacter lindaniclasticus(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Soil → Unclassified → Switchgrass 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?
F020317Metagenome224Y
F023948Metagenome / Metatranscriptome208Y

Sequences

Protein IDFamilyRBSSequence
Ga0070669_1000982382F020317GAGGMKPVGSVTHSVMAPADNPPHGAYGAIRALLSGGDRRGIAKSNRARVEIERNPALVTELAALTDDPDWLVTQRALDLMEKLARDHPAWIEPHKETFIGSLAQSDKWEIRLQIVRALPLFRWTPAQARRVEEILIANVSYPQTFVRAWALDGLATLAERRPTLRPVVRRHLREFEASSSKALQARARHIRARLAKSADK*
Ga0070669_1000982383F023948AGGAGGVDTAPPPSRYRTVIGAASLIVAPALMSIGDCMHPHETWDAEAQVAMVAQSASRWYIAHLLLFAGMLLFVPGILVLSDVVMKRRPAVGYAARVFLVASVGALSAVFVCEMLLGRFVSEGADNAAAVALFKTFQSGAILGALIPGLLAFFIGTGLFVTPLAATAGPFRWPALLFALGALLIMGEIILAEVLLSQIGNILIFFAGVAFAWLLLRDRELT*
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