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_10060180

Scaffold Ga0209698_10060180


Overview

Basic Information
Taxon OID3300027911 Open in IMG/M
Scaffold IDGa0209698_10060180 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)3284
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
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?
F000781Metagenome / Metatranscriptome895Y
F007488Metagenome / Metatranscriptome350Y
F084509Metagenome112Y
F106044Metagenome100N

Sequences

Protein IDFamilyRBSSequence
Ga0209698_100601802F084509GAGGMPSYSNVVLPVSVGFGESASVIASTDVIFPAPFKSAQVALAPNFSTGKVRAAVEIIWSGAPGAISVQLQTADTDIDAAYAQEGAAITAVTIGNVTRAEFPDVVAKFARIYIMTLPNNVTATAKISS
Ga0209698_100601803F000781GGAGGMLTVAQLAPLKERDPYLYETLSKIVAAVNATSVHAGVDPATPAAAPPTIAALKVQAANGWFDLAITDTAATRPGLFYFAESDVTPGFLAPRVYFLGASRNLYVQLGNQTLYWRAYSQYVGSMPSAPVVFGTPPMAVVGGGASGPAPLPSSGSGRLPNGVVQGGNGFGVALGARVVKPVLL
Ga0209698_100601804F106044GGAGGMPNLVHNASWDFNPGDTVTLTATFTFDLNDPSDNQMVASVLTTLQGRTPSVTLTQSDNATISVVVRI
Ga0209698_100601805F007488N/AVKIRNYEPGDLAALKEMHSRQGFGYAFPDIEQPLFLTKLVLGREEAGKGIAGAALLRLTAEAYLLLDPEDGSPRERWQRLLVLHEATRREALARGLEDVHAWLPPEIGKKFGRRLRRLGWVKDDEWIPYCKKLD
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