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 Ga0210393_10000013

Scaffold Ga0210393_10000013


Overview

Basic Information
Taxon OID3300021401 Open in IMG/M
Scaffold IDGa0210393_10000013 Open in IMG/M
Source Dataset NameForest soil microbial communities from Barre Woods Harvard Forest LTER site, Petersham, Massachusetts, United States - Inc-BW-C-27-O
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)288159
Total Scaffold Genes264 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)199 (75.38%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria(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?
F001194Metagenome / Metatranscriptome750Y
F003581Metagenome / Metatranscriptome478Y
F044041Metagenome / Metatranscriptome155Y
F047241Metagenome / Metatranscriptome150Y
F057553Metagenome / Metatranscriptome136Y

Sequences

Protein IDFamilyRBSSequence
Ga0210393_10000013142F001194N/AMKAWRAVLQMLAGLGALIGYGCLLAFLYLVGMQTYRWFREGEWMHIGMGDGIRFGLVHCCVKDGGGGRLAGFLQWWESPATWLGLHKVFEIIPASLALFAVSIVGNSLFIYCRDRLKQR
Ga0210393_10000013198F044041AGGAGGMQLAEVKALCDQLREVIAAGPGRNDLALQEAMGIVSMLQQAALWNGPRDKLMTVRGWLTVWFSQRLWRQCGDEGETCRQSLLSDILVVESHWERRTAPA
Ga0210393_10000013202F003581AGCAGMKSIVFILVAQLHSGGAHTVAAYPSLEQCRDALQVATTNVAADYTCAATPVEGRWSQKDSRFLMVRE
Ga0210393_1000001360F047241N/AMTDGRDNEHLLRALALSHDMLAVAEKADWRSLGALDAERLELLKSFWRKTQRADAADRALLEEISKINDRTIGLVEHQRRSKGRDIDMAAVGRRAVAAYSTIRLQR
Ga0210393_100000138F057553GAGGMSEVDGVSNSGLYPALPIADRRSSKDDKERRQRSDQGPDKPAVKSADTPGTPRPPKSQIDEYA
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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