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 Ga0210408_10009584

Scaffold Ga0210408_10009584


Overview

Basic Information
Taxon OID3300021178 Open in IMG/M
Scaffold IDGa0210408_10009584 Open in IMG/M
Source Dataset NameForest soil microbial communities from Barre Woods Harvard Forest LTER site, Petersham, Massachusetts, United States - Inc-BW-H-4-M
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8130
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (58.33%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria(Source: UniRef50)

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?
F002750Metagenome / Metatranscriptome533Y
F014492Metagenome262Y
F058741Metagenome / Metatranscriptome134Y
F086235Metagenome / Metatranscriptome111Y

Sequences

Protein IDFamilyRBSSequence
Ga0210408_1000958411F002750N/AMMDFIHRLLQGRYVGLLEAEVVRLRAENRALTNSLLGTAGFPPLEYPEPAKTQPLPRLRKRSWHQIQAWKEAEAGSSEVAK
Ga0210408_1000958412F058741AGGAGMDLYPTAETWTGTPGTIAPADGNAPTAVAPASLPASSAHAFGGDAHLLDDATRHPLGSTTVAPHLGPNNERLEDLKPKLVNALRDLVRQYREEGVTARRHEIRRIRQARLFWQGLQYAWWNPNDMNWHVPFEQR
Ga0210408_100095844F086235GAGGMDSKLRFVSGISVLFTTLAFGHIMIHDTEHMLSNHDTSQWFVIGHTALAIVLGVLSLTGGFLLLTNRRRPT
Ga0210408_100095849F014492GGAGMIALSMQGAFQKLTQTIYLDRVLKIVGVAGFVFTYLNAWSSMGVGLKLGFICSAAAWFVGARFSKIYR
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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