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 Ga0210403_10000019

Scaffold Ga0210403_10000019


Overview

Basic Information
Taxon OID3300020580 Open in IMG/M
Scaffold IDGa0210403_10000019 Open in IMG/M
Source Dataset NameForest soil microbial communities from Barre Woods Harvard Forest LTER site, Petersham, Massachusetts, United States - Inc-BW-C-19-M
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)190222
Total Scaffold Genes171 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)148 (86.55%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria(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?
F002025Metagenome / Metatranscriptome603Y
F027754Metagenome / Metatranscriptome193Y
F076318Metagenome / Metatranscriptome118Y

Sequences

Protein IDFamilyRBSSequence
Ga0210403_10000019100F076318GGAGGMIEVGAHTVLVFVKMQFQGQWSRFSLVQQIGYDVNKGGLLLVVTEDENAAKTTYWFKLATGHEVWVLEDVVHIPAICIRSVPGDQIRCKG
Ga0210403_10000019153F027754GGGGGMRHFTAEEWIDFVNQVTSPKQQGAMRKHLDTGCERCMETVVLWQKLHNTGAMEVSYQPPVAQVRLAKAAFATAGGAKQRNEMSSFAEVMFDSFLQPLLAGARSSGGLGTRQMLYRADPYQIDIQIEAKPEGNRLMVTGQLLDVSSPGVAGRDVKITLSNHRGNVVHTVTNQFGEFRSEIENTGDLELSFPGQAEKSIVISLRNALGNLPGSKA
Ga0210403_1000001953F002025AGGAGMIHQVPKYVTRARASLILGIPETELNRISKESGLGHVERAGSQEETYFTYEELQRICILAANQVQGILG
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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