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 Ga0075029_100013039

Scaffold Ga0075029_100013039


Overview

Basic Information
Taxon OID3300006052 Open in IMG/M
Scaffold IDGa0075029_100013039 Open in IMG/M
Source Dataset NameFreshwater sediment microbial communities from North America - Little Laurel Run_MetaG_LLR_2013
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4597
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Sediment → Unclassified → Unclassified → Watersheds → Freshwater And Sediment Microbial Communities From Various Areas In North America, Analyzing Microbe Dynamics In Response To Fracking

Source Dataset Sampling Location
Location NameUSA: Pennsylvania, Clearfield County
CoordinatesLat. (o)41.170727Long. (o)-78.4726Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001528Metagenome / Metatranscriptome677Y
F005822Metagenome / Metatranscriptome389Y
F011771Metagenome / Metatranscriptome287Y
F014867Metagenome259Y

Sequences

Protein IDFamilyRBSSequence
Ga0075029_1000130393F011771N/AMIDSKPDPKGEHATASGPTRFGGLDQVDWLMIAISVLLGTVAKQHHFLDLSDQFLEWVLPFLLMVAGYWTRRKVTELIESWRAKAKSPSSE*
Ga0075029_1000130394F014867GAGGMRTFFPSTYDRADVLMSAGCSTFVSAALILVIPRFGILLLEILLGLFFIGCALMARKRLRRQALGQDSSDKSKDARTRRFDRYDVLMILAVVIVQTSTAGLLRKAGLAEGTVGILPLFLFAAGILLKPRAVEFIEGRRKTKQAGRNSNNLPTVAAQASASEAGTKTVVRAATKNGDLE*
Ga0075029_1000130395F005822GGAGMKVSEQPTALNGAESTADSKITHPPAGEGRRSRAVTDSRPTLPRNAATRRRRNRQDNSETSGEERFFLASGSSDGAVPALGRECGSEAEAIIDAFRERVNFYRLSEFQTRADVGPSGEPVLRKDGLKKNNPAS*
Ga0075029_1000130396F001528AGGAGMSERNQIVVVLIVSLLLGAFVDRSTALKIVAGVALLWTLQNQPTVFECIRKLFSLRRGGPSVREYRGGTTTLHAS*
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