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 Ga0210394_10001590

Scaffold Ga0210394_10001590


Overview

Basic Information
Taxon OID3300021420 Open in IMG/M
Scaffold IDGa0210394_10001590 Open in IMG/M
Source Dataset NameForest soil microbial communities from Barre Woods Harvard Forest LTER site, Petersham, Massachusetts, United States - Inc-BW-C-12-M
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)35390
Total Scaffold Genes52 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)42 (80.77%)
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?
F001247Metagenome / Metatranscriptome737Y
F008728Metagenome / Metatranscriptome329Y
F025534Metagenome / Metatranscriptome201Y
F046507Metagenome / Metatranscriptome151Y

Sequences

Protein IDFamilyRBSSequence
Ga0210394_1000159013F001247N/AMKTKTWTVITNTGKQADLECGLEKSQIHRPTHISAREFIHWLAPESHIDENSLRSLFKL
Ga0210394_100015903F046507GGAGMETARFVAIFIAIFAGLFAAFFCVFLGAFDPSGEQRKAARDKRLAEHRMNARLLRLDI
Ga0210394_1000159046F008728GGAGGMSESTLGVNVPSRLEKGISELQWLHEVLLSDNLDPHILANFRDALNRVRNAAWAAQQYVARKETGQDSSTVLSFVAGERIRATYHLCQAISDDLKRTDIEVQAGSLVQLHEVARVLTEQLDGAVNRLG
Ga0210394_1000159051F025534GGAGMPLPQEVHRRLQARAVTDLDLASLLAIFTKPDESVSEPPLDQVIKDGENAQVLRRTS
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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