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 Ga0209067_10277904

Scaffold Ga0209067_10277904


Overview

Basic Information
Taxon OID3300027898 Open in IMG/M
Scaffold IDGa0209067_10277904 Open in IMG/M
Source Dataset NameFreshwater sediment microbial communities in response to fracking from Pennsylvania, USA - Cold Stream Run_MetaG_CSR_2013 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)916
Total Scaffold Genes2 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

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 NamePennsylvania, USA
CoordinatesLat. (o)41.1289Long. (o)-78.4195Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001128Metagenome / Metatranscriptome769Y
F012080Metagenome / Metatranscriptome284Y

Sequences

Protein IDFamilyRBSSequence
Ga0209067_102779041F012080AGGAGVGRPTDESEKARVWKLLSDAGFIDIAPDEVRDRIKEAKDVVMGRLSELLSVRNEFHERESAAYSLATLKKLERTLEQNVKQQDANDLDRK
Ga0209067_102779042F001128AGGMRSTAARAGIGANWPPEEGEVITFQSTNGLSTGVVEEVRWGLVWRDFILDDGRVIPEHKIDGHPEPPVWRKPEEVAQDERESWERHLVSLAEAGFDPREREQSFWAELNQYLAYTYLRFKEAGRKPPDLESRVEL

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