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 Ga0070734_10000019

Scaffold Ga0070734_10000019


Overview

Basic Information
Taxon OID3300005533 Open in IMG/M
Scaffold IDGa0070734_10000019 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen06_05102014_R1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)525135
Total Scaffold Genes452 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)353 (78.10%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

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?
F000036Metagenome / Metatranscriptome4352Y
F000260Metagenome / Metatranscriptome1431Y
F000969Metagenome / Metatranscriptome818Y
F007331Metagenome / Metatranscriptome353Y
F009101Metagenome / Metatranscriptome323Y

Sequences

Protein IDFamilyRBSSequence
Ga0070734_10000019198F000036AGGMAYKETFWMACDSTEQLRAEYGPFLTRGEAESEAKKLGFGYLLRYEHILGANEEIEEVRCVFIELPGAAPAGGETLPVTLHTRCASCGESAAHETGWQAEVWADIHEFEHSRHRVRLFEHARGKGLKEIGDWRA*
Ga0070734_10000019267F000260GAGGMNWKSRLLVGVLTAVAMMLGTYLLPRGGTLRDVALAQFPATVGIWAIFVLLFVKLK*
Ga0070734_1000001933F009101AGGAGMKRAIRMAILTVGLVGTFIAATAQLVPAADGGPILVCPPKQQNCQINLPPK*
Ga0070734_10000019409F007331GGAGGMSTIEEVRAAEKKVQQILDELRHAGALDPNHLNDQLRAATEEYAQVVRELKA*
Ga0070734_1000001997F000969GAGGMINDNVVKCPLCGGFTHVENSELLAALKEPRIREQVEKYIAELLKSPVDELTTVGATQGGRDFQKDVHSWNPCVPMWKRSPKE*
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