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 Ga0208916_10004421

Scaffold Ga0208916_10004421


Overview

Basic Information
Taxon OID3300025896 Open in IMG/M
Scaffold IDGa0208916_10004421 Open in IMG/M
Source Dataset NameAqueous microbial communities from the Delaware River and Bay under freshwater to marine salinity gradient to study organic matter cycling in a time-series - DEBay_Spr_0.19_<0.8_DNA (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5570
Total Scaffold Genes13 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (76.92%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Coastal → Unclassified → Aqueous → Aqueous Microbial Communities From The Delaware River/Bay And Chesapeake Bay Under Freshwater To Marine Salinity Gradient To Study Organic Matter Cycling In A Time-Series

Source Dataset Sampling Location
Location NameUSA: Delaware Bay
CoordinatesLat. (o)39.283Long. (o)-75.3633Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F007164Metagenome / Metatranscriptome356Y
F010463Metagenome303N
F023585Metagenome209Y
F023833Metagenome208Y
F064496Metagenome / Metatranscriptome128N

Sequences

Protein IDFamilyRBSSequence
Ga0208916_100044211F064496N/AEKMWFERPTYAKRAMVQTRAISRACRSAFAHIVVLIDSKLSTTPAEEIPVGGFEDLNTDKYEPAPKPVKLDTVKADFISKADLADITAKLNGVAVKTNGGEPRDMELKFGKHKGSTLRQIAAFGNKGLDYLEWLSKQDLKPGADGKPYKNDIIRNEIIAEILAEADAIAKGNPNDEIPF
Ga0208916_1000442113F007164N/AMSEKQIGMELQKTVRLLDKAKQNAIEQMGEAIGLAADAGDILLSARVEGLDLDTIQEVAGINGEQARRYERVAKARPSLQAPTSGGLKQLALWTGLLPDPIETSNPKAEQAWHSYIIKARQWLARKTPSQWTPAQRTQ
Ga0208916_100044212F023833AGGAMKSHSDQLQDIINDAMSNAATLERERCAELVQKLADGTEDQVIQDILNEVVVALRRLTDE
Ga0208916_100044214F023585AGGAMSVKRLKLVDEFHAIVSKRLKDLFKDFDHAKRENYKDIISHLDYSHRITKELLDRAKKYQKRDMEAKKK
Ga0208916_100044216F010463N/AMVLAATIHRVKMCEDKLREFEQMVTTLTATMAQNRAELASKGLEKFVIGVTTPLDIPKELIPTRGKDGARRNREYSTVKKRWTLWKHQLDSGMSMSELARAWGVHRTTIMNAKSRNFAVRKAKGGSR
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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