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 Ga0070743_10020256

Scaffold Ga0070743_10020256


Overview

Basic Information
Taxon OID3300005941 Open in IMG/M
Scaffold IDGa0070743_10020256 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary, USA - metaG S.697
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2318
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (83.33%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (100.00%)
Associated Families6

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

Ecosystem & Geography

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

Source Dataset Sampling Location
Location NameUSA: Columbia River Estuary
CoordinatesLat. (o)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F016661Metagenome245Y
F054351Metagenome / Metatranscriptome140Y
F065668Metagenome127N
F078585Metagenome116N
F079927Metagenome115N
F095309Metagenome105N

Sequences

Protein IDFamilyRBSSequence
Ga0070743_1002025611F054351AGGTGGMTKHTYSIVDADGYILLTVESQFTTRDFDTEAKLSIKPLLPVIAKQYGVDYVYYTNTFRKDK*
Ga0070743_100202564F078585GGAGMSRYDDCGSYDYSDYCEGKGYYESYTEKPFDEDEASLRRIEAREETERLAKLYPPIGKQEMQERIKEVKTRLGAKYND*
Ga0070743_100202565F079927GAGGMSKDYREQSQLEDEADEKYLTMYQYYKQLTDYERGEYDALHSYPFDESEESNKDYTEGFRQGYEYAQQMGANSNE*
Ga0070743_100202567F065668AGGMLYTIWVGGVEVNSHLVSREEAYRIASNWRNDGYTDVIVERHKPYA*
Ga0070743_100202568F095309AGGMNYAEYRNKLRKLSAKYNESYKQYGWGADTTRKLRQQKTDLRAKYAVHSFDYAVESLTSKGLL*
Ga0070743_100202569F016661GAGGMNYSAERYLALKQFEREQKRDKIRALLWNVSIGSIYAMAVIQVFTGVIS*
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Institute for Fundamental Biomedical Research
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