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_10001370

Scaffold Ga0209698_10001370


Overview

Basic Information
Taxon OID3300027911 Open in IMG/M
Scaffold IDGa0209698_10001370 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)28075
Total Scaffold Genes30 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)22 (73.33%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae(Source: IMG/M)

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?
F033558Metagenome177Y
F094245Metagenome / Metatranscriptome106Y

Sequences

Protein IDFamilyRBSSequence
Ga0209698_1000137014F094245AGGAGGMCNSKFFILMVALFLWLGVAAGQSLSEGSVVGLQVEPNPLNSTLVYDFELCCGYPSGPGGFLGNGFAYVDGEWTLFYKHPPQVNGYAFSGVIDTWYTPQAISHYCTLQSGTLKDGEMLLGDKLIAAGLVAEYSQLFCQRDGVYWLGPGGLTVHAQ
Ga0209698_1000137021F033558GAGMSDNDSRTNTHAPLTWVQFIDRALEAERRATEAEFRRCHAVLEEHVRAEDLRHEAGDAKIQKANEVLDYRLEEMNNFRAQINQERTEYLRREMYDREHAAFEERLKILEIVRGEQTGRTAAYASVVAFVVIVAQVVLHFWR
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