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 Ga0102873_1002896

Scaffold Ga0102873_1002896


Overview

Basic Information
Taxon OID3300007545 Open in IMG/M
Scaffold IDGa0102873_1002896 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1547B-3
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5432
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (12.50%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families2

Taxonomy
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage(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)46.2314Long. (o)-123.8828Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F008495Metagenome / Metatranscriptome332N
F018136Metagenome / Metatranscriptome236N

Sequences

Protein IDFamilyRBSSequence
Ga0102873_10028961F008495N/ASKSILHVLNILIVYHLRLGDIARCLPIAKHFADQGHNVMFECLPEYHGLFEMVDYCKPLYPQNDHSGFHRIINLQIWPDLHEDFCASELGWSDYVYGLFPEGKDIDRQIVLNSPAIVTPPELKSWVLCFPTGYSQDKKIDVRDVITIAHQVANGRPVLCAGKAAHGMAEFESIEYMCAYIRDAQEVVTINTSTSILASALRKSWVHISDSPKHDFKHPNQRRIERKF*
Ga0102873_10028965F018136N/AMITDSTYTLTLEKALTDTFVLALQQEMQSALVVTAAENFGTMTLPACFVKCKRQRESIIDSAIFQFSVDIALIVQADDMDQMAMENLWSQVLCVSHDITGLKTKLNAVRPQYAFVFGILRDGSVSLSSNERHFERSVTITVHAALFAS*
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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