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 Ga0102859_1039822

Scaffold Ga0102859_1039822


Overview

Basic Information
Taxon OID3300007708 Open in IMG/M
Scaffold IDGa0102859_1039822 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1371B-02
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1282
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

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)46.2342Long. (o)-123.9167Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000263Metagenome / Metatranscriptome1424Y
F000441Metagenome / Metatranscriptome1136Y
F001460Metagenome / Metatranscriptome690Y
F023344Metagenome / Metatranscriptome210Y
F047059Metagenome / Metatranscriptome150Y

Sequences

Protein IDFamilyRBSSequence
Ga0102859_10398221F000441AGGAMSDMYLNDQLNKAQKLLWGGSETENIEAHNIIAKLIKDR
Ga0102859_10398223F000263AGGMNNEDIGLPPHLQRMVNAGVSGLDIMHGELKNLMLIAEQELASAIEREEESGEAMDSMLRTEAEGMLDALVLVYQLTYDLSFAIGARDEA*
Ga0102859_10398224F047059GGAGMKLHLLSLNQDLEDARNNEPLDEDEYWESDSFYMGAIDATEHLLSVATDIMNSTNERV*
Ga0102859_10398225F001460GAGMMLGYSKEDLDTMINAIHDAKLFYLRTPSDLMDKTQLRTDLEMSVSFMQGLWAEGYFD*
Ga0102859_10398226F023344N/AGSIMEAFTDTVGEHILGAIQVDIEQALFEDWNNANLDEGTAFAEYKFMQFAPDNLKQSYNEYYGYIEGDEFLL*
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