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 Ga0102811_1070940

Scaffold Ga0102811_1070940


Overview

Basic Information
Taxon OID3300009024 Open in IMG/M
Scaffold IDGa0102811_1070940 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - Flood tide ETM metaG S.705
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1308
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Crocinitomicaceae → unclassified Crocinitomicaceae → Crocinitomicaceae bacterium(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)46.2Long. (o)-123.94Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F013084Metagenome274Y
F018927Metagenome232Y
F043399Metagenome156N

Sequences

Protein IDFamilyRBSSequence
Ga0102811_10709402F013084N/AMGILSILGLMEETKNTVLHRGHNVKNWLVLGNDCYALECIDCKMTCMIKEKPLPNEIKASGEALALNCVKPVKEKKLRKR*
Ga0102811_10709403F018927N/AMDKHITICRHLDVCGTTTYYVIEKSKNSSSIIWNGTCKQAAYQVAYRNARKENTPLYDTVYKAQVDRNGVKHIIPVGNELLEVN*
Ga0102811_10709404F043399AGGAMKIPPSSDMLLDDYTMVIWTIVKKNNNYILLDSCGVEVFRRKENRKKEIYQYCEDNGIDVQVEF*
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