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 Ga0210395_10002769

Scaffold Ga0210395_10002769


Overview

Basic Information
Taxon OID3300020582 Open in IMG/M
Scaffold IDGa0210395_10002769 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-O
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)13553
Total Scaffold Genes16 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (68.75%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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?
F000552Metagenome / Metatranscriptome1033Y
F007373Metagenome / Metatranscriptome352Y
F007553Metagenome / Metatranscriptome349Y

Sequences

Protein IDFamilyRBSSequence
Ga0210395_1000276915F007553GGGGGMFEDKICAVDFCEGAAVASLAQQTFCLNHFIDLCYENLQRIDPRGQKHGRVPLDLRSLRAFVEECSHRTLEVALHCETIDNLQRGRLLDILLWAGELFLLLRVPSRGFADSLSEKHGPVLTRLAARHF
Ga0210395_1000276916F007373N/ALQAHSLSHPASPLLESNALSTNAPPLGMCYTNSRITAHSIEFVAKPNEAHKVHAALPAALDGAFGEVAGFVGSFVMIANQEARLVTVVTLWSGEDRMQRCQENARWVRALLAPYLDRCLRVQTFAAYVPEAPQVSRQFEQACSKEAFETGLHEEPTLCVA
Ga0210395_100027696F000552GAGGMEPMRRKLVWAERPNFQGWCCSECAWVFSPSWPLVGNSVDEMKTNFGQQRDKEFASHVCAEHPRATKNPG
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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