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 Ga0102817_1024770

Scaffold Ga0102817_1024770


Overview

Basic Information
Taxon OID3300007555 Open in IMG/M
Scaffold IDGa0102817_1024770 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - Ebb tide non-ETM metaG S.555
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1326
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

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?
F004583Metagenome / Metatranscriptome432Y
F006220Metagenome378Y
F007310Metagenome353Y
F048994Metagenome147N

Sequences

Protein IDFamilyRBSSequence
Ga0102817_10247702F004583AGGAGMRTNRNSDRLREILVSTRHQIVSLKDIQMDMLRTDSKVANQIATQISALEEVYKHQLSLVTLAENVEPKRNGLFSGHIKTKEDRLANIMD*
Ga0102817_10247703F048994N/AMIGTVKIEFGAMNLYVNGVCVATTSTIAGIKHAAKRYNLQGYIMATG*
Ga0102817_10247704F006220GGTGGMKKFKKFVEELAIASGTEMMRASQMRPTSFKDKSKYSRKAKHKNRQDKNSDDSYLQSL*
Ga0102817_10247705F007310N/AHHHYEFLIEDITGFNLQKDLCAESVKYMAKRLKDTPYHRAFRNKYSIYQDEYKTLVEKFNNQADNNGRIVVE*
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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