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 Ga0208241_1010016

Scaffold Ga0208241_1010016


Overview

Basic Information
Taxon OID3300027297 Open in IMG/M
Scaffold IDGa0208241_1010016 Open in IMG/M
Source Dataset NameForest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaG HF047 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1319
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Forest Soil → Forest Soil → Forest Soil Microbial Communities From Harvard Forest Long Term Ecological Research (Lter) Site In Petersham, Ma, For Long-Term Soil Warming Studies

Source Dataset Sampling Location
Location NameHarvard Forest LTER, Petersham, MA, USA
CoordinatesLat. (o)42.550409Long. (o)-72.180244Alt. (m)Depth (m)0 to .1
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000614Metagenome / Metatranscriptome985Y
F040369Metagenome / Metatranscriptome162Y

Sequences

Protein IDFamilyRBSSequence
Ga0208241_10100162F000614AGGAMLTAAQRHAIDRFAKGLFGLSDDALIDTYHQAVEDLRAARAEGSDNLSKAHAQTLAAEKAMRDRFPDYRTRYKMRYP
Ga0208241_10100163F040369AGGAGMSTPAEKAAAYLTRLEADRRTALAVSEAKAEEARLIQARQEGFREALEILELQVSTDNTEVEPIKSLTRRRRNIPQLIIRELSFSGKAMAKEQIAKAIDYLPWQTEKALRRLKGSEKIVQNKDGRWEVITSTIVQTNGHAVTAAN

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