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 Ga0150983_12448420

Scaffold Ga0150983_12448420


Overview

Basic Information
Taxon OID3300011120 Open in IMG/M
Scaffold IDGa0150983_12448420 Open in IMG/M
Source Dataset NameCombined assembly of Microbial Forest Soil metaT
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)7683
Total Scaffold Genes23 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)16 (69.57%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon(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)42.532967Long. (o)-72.180244Alt. (m)Depth (m)0 to .1
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004601Metagenome / Metatranscriptome431Y
F102999Metagenome / Metatranscriptome101Y

Sequences

Protein IDFamilyRBSSequence
Ga0150983_1244842011F102999GGALRSEIVFRSFRLLLVKVPAVVPVHDSVEVCVAPRTTLVGLKVHANPAGDTVEDSVTVPVKPLSGATLIVEVAVAPARIVAVVGLAVTV*
Ga0150983_1244842013F004601N/AVHVSPAGDTVDVSATVPVKPLTGATVIVEVPVAPAMAVTLVGLAATVKSTPPVTVTVTVAE*
Ga0150983_1244842018F004601GAGMLVGLKVQVNPAGETVDARATVPVKPFTGATVMVEVAVAPARALTLVGLAVTV*
Ga0150983_124484203F102999GAGVPVTVTVYVPAEPEHDSVEVCAAPRTTLVGLRVHVRPAGDTVEARATVPVKPFNGVTVIVEVAAAPARALTAVGLAVTV*
Ga0150983_124484208F004601GGAMLPGFRAQVRPAGETTEDRATVPVNAFTGATVIVDVAVAPARALTVVGLAVTVKSLTLIVTVAE*
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Institute for Fundamental Biomedical Research
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