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 Ga0209698_10007877

Scaffold Ga0209698_10007877


Overview

Basic Information
Taxon OID3300027911 Open in IMG/M
Scaffold IDGa0209698_10007877 Open in IMG/M
Source Dataset NameFreshwater sediment microbial communities from Pennsylvania, USA - Little Laurel Run_MetaG_LLR_2012 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)11084
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (75.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(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?
F001734Metagenome / Metatranscriptome644Y
F003010Metagenome / Metatranscriptome513Y
F008261Metagenome / Metatranscriptome336Y

Sequences

Protein IDFamilyRBSSequence
Ga0209698_1000787711F003010GGAVKKKSLIESLPVLLLLGLLAGAVGGLGIGMIQMRAASSATAAGK
Ga0209698_100078778F008261GGAGMRIWYLCYAALGIAVARWVFKRQPLPVDPIHRLRSSGLL
Ga0209698_100078779F001734N/AMRLRISALVLVALCAIVWPASVRGQEDEPSLGDVARNLRKEKARQPSPAQAAPEAARTVIDNDNLPQVMEERAKPVARNKTVFSLDRSGNTLKVSSPDVTCSMSFNARASSLLIRPVLIEDLPLDELVKLDGPGSIQDDSLQLDVFNGTDWELREITVALTLERKPGENAELAARARVIPAVEGPAQAVTVERHSDVTLLYHLKTEAKPFSKTSLHENIGITPGAEEDWRWSILEAKGIRPAGARVAPESLSEPLFGSPLPFVPSTNAPPDSSAPAGPVRPPQ
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