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_10000017

Scaffold Ga0209580_10000017


Overview

Basic Information
Taxon OID3300027842 Open in IMG/M
Scaffold IDGa0209580_10000017 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)281208
Total Scaffold Genes254 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)191 (75.20%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria(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?
F003894Metagenome / Metatranscriptome463Y
F012825Metagenome / Metatranscriptome277Y
F068664Metagenome124Y
F072787Metagenome121N

Sequences

Protein IDFamilyRBSSequence
Ga0209580_10000017208F003894GAGMQPTNIVLLQSDPNVARLLAVSLSDSFHGVHVARSLDELRRAAAKHRPYAIILDLESATLHDVETLKHEFEGIRIICNHRVADEEMWTKTLTAGADDCCPSSDTRGILTAAVPRSMSSRVAA
Ga0209580_1000001750F072787GAGGMSSQEVGPEWILSTFTSPSPGTQDHINELVAVARRLWPRIQAHAVREQPHKSPDDAITIASDVWESTLQSVGKTIVRSNGRGIQIRDVDAYLFGIFIHRFNRALRKERKRREMLQYFPSTRDLEILRQAHDSKAARDIEQSAQAKEAVRNLDEWPRKVWIARKYGYSFPEIASFLGMSEAQVKLRFRYALARLREKLGL
Ga0209580_1000001751F068664GAGMALAAAAVLLIIIGGLLLLRSRPSIETATVTIDLRERSVARGENPPENNQSPIELSRQAKHLVLDLPVGSKEGNYELAVLRSSGEEIRSTTGVAQLENHTVVLNANIDLAAVPPGSYFLGVRQPGLEWTRYLVRVR
Ga0209580_1000001784F012825N/AMAFATGITAGLAASLGIEWMRYLVVVLIGVVGALFWQLNEVREDAERSVVRAVSHHLNNSLSIVMNRQHLDPNAREQIVDDQLLRCVWAIQTILPALNVGLPQLLNIRKNSYPNEWTQPDIEQLRRQQMPTVH
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