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 Ga0194023_1003477

Scaffold Ga0194023_1003477


Overview

Basic Information
Taxon OID3300019756 Open in IMG/M
Scaffold IDGa0194023_1003477 Open in IMG/M
Source Dataset NameFreshwater microbial communities from the Broadkill River, Lewes, Delaware, United States ? IW6Sep16_MG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3149
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (100.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → River → Unclassified → Freshwater → Microbial Communities From Sediments And Microbial Mats In Various Locations

Source Dataset Sampling Location
Location NameUSA: Delaware
CoordinatesLat. (o)38.7906Long. (o)-75.1638Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F008696Metagenome / Metatranscriptome329Y
F033409Metagenome / Metatranscriptome177N
F079213Metagenome116N

Sequences

Protein IDFamilyRBSSequence
Ga0194023_10034771F079213AGTAGMATSNDTTKGKHKMTTANLYNAPKALHQDGKRMMLELSTGQRFIVKGSREANKICKELNAKPWNF
Ga0194023_100347710F033409AGGAGMSLGFLYTDKTKRYTLWESVPKAEWLPKGGLSWTNRGTFRATNAYSAIEQAAHGGYYVKAGDKITNSAGPEIIIKTGGTV
Ga0194023_10034776F008696AGGAGGMANWHSETIERFKTMDNDMLLYIRQDAYNAAKAGETIDNPKVGQYWDEFHYASQELRRRKITAVEFKETA
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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