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_10000017

Scaffold Ga0210403_10000017


Overview

Basic Information
Taxon OID3300020580 Open in IMG/M
Scaffold IDGa0210403_10000017 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)195338
Total Scaffold Genes178 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)143 (80.34%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Associated Families6

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?
F000169Metagenome / Metatranscriptome1788Y
F003144Metagenome / Metatranscriptome505Y
F005122Metagenome / Metatranscriptome411Y
F020212Metagenome / Metatranscriptome225Y
F037403Metagenome / Metatranscriptome168Y
F049786Metagenome / Metatranscriptome146Y

Sequences

Protein IDFamilyRBSSequence
Ga0210403_10000017102F049786GGAGGVIPFLAKLFRGFHLIFGISSPPPGENERQFVFAWLGILAALAAFCAVLFYLIPLLYFRQ
Ga0210403_10000017105F020212GGAGGMWEDSRYFWVVPCKNYWFHMRKNLFFRHRILLAETDAITPRPAIDQRFTVRCDLCGREYLYKPSEVLRSELEPPESFTPHPLFRDEGSGAHAAIARPTTPVSRGDSRS
Ga0210403_10000017173F003144AGGAGMAWLRRTLRIPAHESSVGLVLVCCVVTMCFMSVALVWQAQIIANQREAIQWLERLKFGG
Ga0210403_1000001737F000169GGAGGMAKRNKLTQVAVSIGSAMGRADRKAHQVAKAGVLAKKELQNISKQVDALKRQLQKTTKRLKGALS
Ga0210403_1000001744F005122AGGAMRIRPSDPNLDHFEDMRGSASVSRSGVYFQSSEPNYEVGMRLFVTMPYSRDPSSICREYLAEVVRRDVLPTGMFGIGIKILMEMGIQHTYNFGAAGSR
Ga0210403_1000001767F037403N/AMDVRFNVAGKRGEFFVRGNLLFGALAVAENTLCGFLIVPKIGIGYAGFECFQALAVLRRVKDNSERE
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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