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 Ga0157374_10000005

Scaffold Ga0157374_10000005


Overview

Basic Information
Taxon OID3300013296 Open in IMG/M
Scaffold IDGa0157374_10000005 Open in IMG/M
Source Dataset NameMiscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - M2-5 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)646767
Total Scaffold Genes598 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)368 (61.54%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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

Ecosystem & Geography

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

Source Dataset Sampling Location
Location NameUSA: Michigan
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F008640Metagenome330Y
F011156Metagenome294Y
F054123Metagenome / Metatranscriptome140Y
F105755Metagenome100Y

Sequences

Protein IDFamilyRBSSequence
Ga0157374_10000005186F011156N/AMPTATITIDSAVKARVAELADETGQSVDDFVETLLRRIADADIHFERGVPVFPPRPGAPLLTVGEVDRLANGEEA*
Ga0157374_10000005356F054123AGGMNILHAITIAALLHHAPAVPAVTCHTGTVSYKFVGTPGATFTYAGATYSIPRSGWIELLSDNGNKVYFAANGRSLPLDVWPIDAFGTRTVPVQQPAAASDNITPNTINN*
Ga0157374_10000005411F008640AGGAGMDKLTRISIRRIFLTPRPNVAYMTAADRLGISFLVLKAEIAEGTIVAVSTGMGMRVSKEEMIAAAMRTWPQSLIEEALGDDAARVLPEAVRLVELRARVPRYQKEMLQWLARRNQTSVDDVLTRELEDVACAYAEEIASDVAGFEMAMSWPECAASAAK*
Ga0157374_10000005494F105755AGGLVLIPSHPRRTPAGIWLVFLLLLVALPGCTVNVRRYAFNTALENQRHIDKLRIGQTLSEVERIMGKGPERRNAHVRFDGISIEEWSYITDYVRRMDTTITFVGGKVDEIRAAPWESD*
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