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 Ga0209580_10028842

Scaffold Ga0209580_10028842


Overview

Basic Information
Taxon OID3300027842 Open in IMG/M
Scaffold IDGa0209580_10028842 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen04_05102014_R1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2512
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (90.00%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (100.00%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Candidatus Angelobacter → unclassified Candidatus Angelobacter → Candidatus Angelobacter sp. Gp1-AA117(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Surface Soil → Surface Soil Microbial Communities From Centralia Pennsylvania, Which Are Recovering From An Underground Coalmine Fire.

Source Dataset Sampling Location
Location NameUSA: Pennsylvania, Centralia
CoordinatesLat. (o)40.7999Long. (o)-76.3402Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F011259Metagenome / Metatranscriptome293Y
F011803Metagenome / Metatranscriptome287Y
F037883Metagenome / Metatranscriptome167Y
F042033Metagenome / Metatranscriptome159Y
F070583Metagenome / Metatranscriptome123Y
F081702Metagenome / Metatranscriptome114Y

Sequences

Protein IDFamilyRBSSequence
Ga0209580_100288422F037883AGGAGMSNQNEPNRVLLRMGARVLTEQEVESVSAAGPPCQLTFTHLPKGGSDEDTFCP
Ga0209580_100288423F011259AGGAGMSRQDNRVLVRTGARELTIEEVDQVSAAMAAHTNVCTAIMATSTVTGPGDGDGCSDTDRDANFI
Ga0209580_100288424F070583AGGAGMNDESRVLIRRGARELDREETKKVSGGLNTQTACTWDPDFGGRDGDGPPEC
Ga0209580_100288425F081702AGGAGGMNEQERVLIRRGARELNSEEVEQVGGGFNTLSITWGPNGRDGDGLLGES
Ga0209580_100288426F042033AGGAGMNDQNRVLIRWGARSLSAEEMERVGGGLHTETACTVPTATCPNKDGDASIGECGPVCS
Ga0209580_100288427F011803AGGAMNDEKRVLIRRGARELTPTESALVNGGFITFSLCTNSPSPDGDQHVGEVGC
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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