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 Ga0209229_10002115

Scaffold Ga0209229_10002115


Overview

Basic Information
Taxon OID3300027805 Open in IMG/M
Scaffold IDGa0209229_10002115 Open in IMG/M
Source Dataset NameFreshwater and sediment microbial communities from dead zone in Sandusky Bay, Ohio, USA (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8147
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)18 (100.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Alcaligenaceae → Candidimonas → Candidimonas nitroreducens(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Unclassified → Freshwater And Sediment → Freshwater And Sediment Microbial Communities From A Dead Zone In Lake Erie, Usa

Source Dataset Sampling Location
Location NameSandusky Bay, Ohio, USA
CoordinatesLat. (o)41.474889Long. (o)-82.854137Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F010672Metagenome300Y
F019448Metagenome229Y
F023041Metagenome211Y
F045603Metagenome152Y
F050379Metagenome145Y

Sequences

Protein IDFamilyRBSSequence
Ga0209229_100021151F010672AGGAGGMPDMQTALKTALTRTLQEWDDDGEISPQTPTINTTINNSVPTPSQAIPMKKTFGITNNISRVTFDYIKNNPGSTRKEIIEALEHQGFAGGSTSSLIAQMRRNNMIHETNNAYYADIPEYRPIKSLKALKKMEAPIAPPKRKYEKKAVTGIGALLREKLENTPMPSQDALDAAAYAMGTARVDVNKRMISLV
Ga0209229_1000211517F045603AGGAGMGLDINILSVPREVATDPTDAYLGSRYDTFPKWKQVAYERNDWGLHTQLMQLYYTRGGTQDTFNNVTVRLYKRDLRLLNESMTAPILEHMKKGRVVYAESSF
Ga0209229_100021152F023041GGAGGMNNPPYDTGKVKIGLTYSPPPPESTPESDWIQGILLGDKQGMDDLLLTTIQSIGLIAFIVIVMLLTGGTSNA
Ga0209229_100021157F050379AGGAGMTDAQLQMEADDLIAKYKDEIIKEGDWWWGTDTHSYNIHCLDDDCDGWYNVNVYKVDPVTGMDNYEWMIDLPRVFIKGESK
Ga0209229_100021159F019448GGAGMTAITKTQMVNACVDYEVDWFFDREPAEQREVYRHLQLHGFEGFKNVPDHNLFASCIDKGIFLMEE
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