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_10030039

Scaffold Ga0209698_10030039


Overview

Basic Information
Taxon OID3300027911 Open in IMG/M
Scaffold IDGa0209698_10030039 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)4984
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (90.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria(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?
F000042Metagenome / Metatranscriptome3762Y
F000309Metagenome / Metatranscriptome1327Y
F001083Metagenome / Metatranscriptome783Y
F001829Metagenome / Metatranscriptome629Y

Sequences

Protein IDFamilyRBSSequence
Ga0209698_1003003910F000042AGGAGMTNIKFVVRVNHGGTRAPAYVQRIDRTPFQMTTNRKLALMMGKFTAEDAVKAFQKSKCIPELVPVPVSA
Ga0209698_100300392F001829AGGAGMRKQYLHLSAYPCDTCAGPVVAGSLAVRENEISKETDIRQVGAICLSCGHQQNEPTAPARARHLLPIAWDLVGAADGCHPTAGCVGAVNRAELH
Ga0209698_100300396F000309GGAGMKNDRSLDHILESAVISSWTALTRGAQTGLIHIEYGFAAGGTLNYLKVWSSLTRGHWLLACEYWMSANTFHDTGVRFENGYESEDLAHILEFVMQRQSEFILPPNLGRQGLLQISTPTDEEIAAAGEFVHGTFDRLGSATAEPALV
Ga0209698_100300398F001083GGAGMYINERQLAISVLEGLREDLTYAHLNNGSRILDVADLRQYIYEQISRIRTNAYFTAALYGNNEGKGQDVSKSDGHNGKAHL
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