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 Ga0099972_13644240

Scaffold Ga0099972_13644240


Overview

Basic Information
Taxon OID3300006467 Open in IMG/M
Scaffold IDGa0099972_13644240 Open in IMG/M
Source Dataset NameCoastal sediment microbial communities from Rhode Island, USA: Combined Assembly of Gp0121717, Gp0123912, Gp0123935
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterJGI facility at Oak Ridge National Laboratory, Brown University
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3200
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (77.78%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Coastal → Sediment → Marine → Coastal Sediment Microbial Communities From Rhode Island, Usa

Source Dataset Sampling Location
Location NameRhode Island
CoordinatesLat. (o)40.435Long. (o)-70.483Alt. (m)Depth (m)78
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F017135Metagenome242N
F020172Metagenome / Metatranscriptome225N
F064230Metagenome129Y

Sequences

Protein IDFamilyRBSSequence
Ga0099972_136442403F017135GAGGMIPIISCPLPGGGQALIKTQDIGGATTGKNPKECDVYVLGWAANGITVDLSLDDFAEMWVSTLFDEGSNDIEIVFTPDELH*
Ga0099972_136442404F064230GAGGMTLRSYLPQMNCTECFKTMVPQFKKEYPHKLEGWSCDCGNSEKAILRERQYTREDDGNNQARVV*
Ga0099972_136442408F020172N/AMFCTRNGYKHIENLDKVCELIGRLKGLTESEYLDLCAINKLENARALEMAKHYPSH*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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