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 Ga0210410_10000047

Scaffold Ga0210410_10000047


Overview

Basic Information
Taxon OID3300021479 Open in IMG/M
Scaffold IDGa0210410_10000047 Open in IMG/M
Source Dataset NameForest soil microbial communities from Barre Woods Harvard Forest LTER site, Petersham, Massachusetts, United States - Inc-BW-C-4-M
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)205450
Total Scaffold Genes194 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)163 (84.02%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Forest Soil → Soil → Forest Soil Microbial Communities From Barre Woods Harvard Forest Lter Site, Petersham, Massachusetts, United States

Source Dataset Sampling Location
Location NameUSA: Massachusetts
CoordinatesLat. (o)42.481016Long. (o)-72.178343Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005360Metagenome / Metatranscriptome403Y
F015764Metagenome / Metatranscriptome252Y
F015925Metagenome / Metatranscriptome251Y
F023203Metagenome / Metatranscriptome211Y

Sequences

Protein IDFamilyRBSSequence
Ga0210410_1000004713F023203GGAGGMFDIIANRKTLVPRKSLYCVWIRAQEGDDAPLIRVWIDPSMTMFESQVKVHEPDVEAARALIQAGLGKGSTP
Ga0210410_1000004729F015925AGGGGGVGEVRAKRAAQRSRTVREDWFAWLPEEMDQLFGATRNELEWSNGILSVALDEALALCEQEQFTIAKERVEAFAGLFDRLAIRLRLVIRTIEEHGSHFGTLPNVTALASENFRGTTAQRISFMDNLLAKVVFRGRTRFFHKLHALKEIIEELQKETRIIVDNVSEGAPLFLERAWRELEVLGYDLNTCMGETTVVLKSFFCALPAEELEAFRQKLVMQVPTILTVSPRRT
Ga0210410_100000475F015764N/AMVPRLTVLGTLHALQGAEKRLGNVRDPVYVALLNQLMTSEAVDFIFEEASGLGPTIAEKLALEKLDFGHYVDLDPARAERAEFGLPLDSHEPHMIGAPPKVAFAHWLLLDVHAKREELWIRRIQQREFKSALVICGLVHLLSFASRLQSANFSVQAINYANWHRNPL
Ga0210410_1000004760F005360GAGMNRSFLIILVPGVAVALGYFFVLRWLGYELEPFRFVMAGLGAVAAVIFVQWHQRRRASRRSR
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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