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 Ga0102908_1007230

Scaffold Ga0102908_1007230


Overview

Basic Information
Taxon OID3300007665 Open in IMG/M
Scaffold IDGa0102908_1007230 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1557A-3
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2062
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Verrucomicrobiae → Verrucomicrobiales → Verrucomicrobiaceae(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)46.2763Long. (o)-124.0055Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F008495Metagenome / Metatranscriptome332N
F020694Metagenome / Metatranscriptome222N

Sequences

Protein IDFamilyRBSSequence
Ga0102908_10072303F008495GGAGLNILIVYHLRLGDIARCLPIAKHFADQGHNVMFECLPEYHGLFEMVDYCKPLYPQNDHSGFHRIINLQIWPDLHEDFCASELGWSDYVYGLFPEGKDIDRQIVLNSPAIVTPPELKSWVLCFPTGYSQDKKIDVRDVITIAHQVANGRPVLCAGKAAHGMAEFESIEYMCAYIRDALEVVTINTSTSILASALRKSWVHISDSPKHDFKHPNQRRIERKF*
Ga0102908_10072304F020694N/AMNELPLAVTFGERNFLANRTTYKRDNSLADGGFMDSASMTITAIYDSFVQTISLGDVLVIGGRRFRVTSAELSQDAVSVDFT
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