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_10006282

Scaffold Ga0209067_10006282


Overview

Basic Information
Taxon OID3300027898 Open in IMG/M
Scaffold IDGa0209067_10006282 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)6541
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (90.91%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

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?
F001596Metagenome / Metatranscriptome666Y
F004823Metagenome / Metatranscriptome422Y
F006278Metagenome / Metatranscriptome377Y
F010114Metagenome / Metatranscriptome308Y
F029198Metagenome189Y

Sequences

Protein IDFamilyRBSSequence
Ga0209067_100062822F010114GAGGMTIELNHDDTRLLYVVLLEQAQEHMSYADTSEVAERFYKLATKFERPVREPRT
Ga0209067_100062823F001596AGGAGMSWFYASSAAVDARNHASPAEIVACFQDQRNVLGRIAFLITGDLATAEQAVVQACEITLRGNSPFRDWLLEWAKAATIASAISHGTEAIRIYEDTYRDRRCPHVEHLLQGDAEERAASLDLILGADTRTLLAELDPLCRAVLVLRVAIRSAIQDCALRLNVSRAAVLGANCHAMTWLHDRNLKLVEKNHDAAHAV
Ga0209067_100062824F006278GAGGMFRAEVQWLASGPTLKLEGKLVADWAEQARCLVTKDVLPKGLIVDLTDISYVDSVGEQLLKWLAGVGAVFVAGSVYAFAVCDRLRLPPMQRITKRHKRRHESSGERSSINHSHPVEAI
Ga0209067_100062827F029198GAGGMDSKPNSRAVRVGGEVIVLHCWACGTAHCVNLELCVPGELSHMVCSNSGCGMSMFLVNELVLDDKTRKQMTKRELNARVTYTRFWK
Ga0209067_100062829F004823AGGAGGMYATKALNGAPAIQRDGQSVLNVCDQDWEFANWLCALLNELGRKSELLLNEHDREWLKTIDSAFGRTVQHA
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