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 Ga0208929_1008513

Scaffold Ga0208929_1008513


Overview

Basic Information
Taxon OID3300027227 Open in IMG/M
Scaffold IDGa0208929_1008513 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1548A-02 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2479
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Archaea → Euryarchaeota → unclassified Euryarchaeota → Euryarchaeota archaeon(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameColumbia River Estuary, USA
CoordinatesLat. (o)46.2319Long. (o)-123.8812Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000980Metagenome / Metatranscriptome814Y
F001125Metagenome / Metatranscriptome769Y
F002935Metagenome519Y

Sequences

Protein IDFamilyRBSSequence
Ga0208929_10085131F001125AGGCGGMGDRANFGFRDSKENIIFLYGHWAGHRMLENLANAVEQARPRWTDESYATRICVSQLINEEWPSETGWGLSVNEIGDNEHKIPVIDWKNKTFTLFEHDLHTPVFSLALDGFVSKYSSQPSMV
Ga0208929_10085135F000980N/AMTKYQKYTWVCTSECDALIEYTFKDGYGWPNGVMDLTCRCGTSCTLLSVEDATIPYTDSPLPTEEEKMETTEKPAVTVPDTYNANLLVTYKVIRGYSDAEYATDKVASIEWDLHNGRQSQKTVGVLNGKIDAVKDIITEAYADSEDQETLRAIAEALSIELIREFEFTASIEVSGTYSYNILEEFGDLDLESEVTDALFADSQNGNIEITDQEVCNVSER
Ga0208929_10085136F002935GAGMRERMTGYTGNVLDGKKLAEIANDIYRAQYSNDFSECTVDNLLLIELEEKNVFGDPKYAVLCSEGVGWEQDTYGCLEIPTNIGQMGLWNGRVFISVDTVKSCLTDKTKDVSDYIRVFGSRLDSNCSLWQSKMSVAPATILG
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