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_10139925

Scaffold Ga0209698_10139925


Overview

Basic Information
Taxon OID3300027911 Open in IMG/M
Scaffold IDGa0209698_10139925 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)1992
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (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 → 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 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?
F044616Metagenome154Y
F047848Metagenome / Metatranscriptome149Y
F097887Metagenome104Y

Sequences

Protein IDFamilyRBSSequence
Ga0209698_101399251F047848AGGAGMDYVHVFVLRTLCFDEDGETKSRNVAVTFDMFEAEDHRNKGVENGYDTFVVPGNWREEQ
Ga0209698_101399253F044616AGGAGMKSPSSEKIDCPLCCGAGELTRAEILDRLGVKDFARVAQLSAEEAFRLLQQKHSNDHQNAWSRFETELAKRTAEIRDRHKDELRLALSERESLSRRVEDSLREITQLHEKNQLLEGEMAKVARIGAREEMDFAEEARTWAGVWISDKLPRNGDFILAYRAPNGEPTEPKILIDCKDKSAVAESDIEKLVRDAKERSIRVATLITREESQLRQVDREARWRRTDGIWLLRTTRQWIVRDLDLLRPIFERMRVEGFDLLERNAMLAEELRRTFPEIDRIEKELGKASKAIQSVSALVVRYKERLRELCDSSACRGSATAPERQYA
Ga0209698_101399254F097887N/AMKTFDNGGKQIGRIDQSFSKDRSVTVHEIRNITTITVRDRSTGKVTTETLIGQSPFGTGE
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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