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 JGIcombinedJ51221_10117221

Scaffold JGIcombinedJ51221_10117221


Overview

Basic Information
Taxon OID3300003505 Open in IMG/M
Scaffold IDJGIcombinedJ51221_10117221 Open in IMG/M
Source Dataset NameForest soil microbial communities from Harvard Forest LTER, USA - Combined assembly of forest soil metaG samples (ASSEMBLY_DATE=20140924)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1066
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria 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)42.53312Long. (o)-72.189707Alt. (m)Depth (m)0 to .1
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005065Metagenome / Metatranscriptome413Y
F014401Metagenome / Metatranscriptome263Y
F018222Metagenome / Metatranscriptome236Y

Sequences

Protein IDFamilyRBSSequence
JGIcombinedJ51221_101172211F014401AGGAGMNTGRVWPQLYKAALFELDAKKVSDRIAEAETALVTRARELFHSVGDHIEEEQAVDDAMYVLHALRSALKCRPNAKSASQDRAA*
JGIcombinedJ51221_101172212F005065GGAGGMMDANYISERLGSMRQEISDLRVTTARYWSKDQHTALEKSAFALRKGRLLEIKREVSDMMKRCA*
JGIcombinedJ51221_101172213F018222AGGAGMVRDPRKTWQYFAQAVIQEDDPEKLTYLMQQLYRVLKDNGEQPTRTI*
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