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 Ga0070738_10001072

Scaffold Ga0070738_10001072


Overview

Basic Information
Taxon OID3300005531 Open in IMG/M
Scaffold IDGa0070738_10001072 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen12_06102014_R2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)63227
Total Scaffold Genes68 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)54 (79.41%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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?
F006712Metagenome / Metatranscriptome366Y
F023670Metagenome / Metatranscriptome209Y
F043590Metagenome / Metatranscriptome156Y

Sequences

Protein IDFamilyRBSSequence
Ga0070738_1000107215F023670GGAGMATDDTKRAAQEFLAVRMSEETVQQEEAVNREAAARLAPQVWKRVADTFNSQCKAWNEILHEEALTCKDTIRGDLRIRCAGKPHQISVHYDSRKLQVTIKNSARPENEKDSVFFIQGWASGAEAHLFRNNQPVNLEAIVLGELRVLAGIGRTAAQ*
Ga0070738_1000107242F043590GGAGGMPRSRNLSKNFLTTALGVAFLLLAVPAVHAQSTDVAGEYVCTEAHVAGKTVQCTAPPLSLKGDGKFELQGREGDYLVNGHWVELKGEVLKSRAKIEAGHKIVFRFTNKKGACEMIYERRVAELGKTNLS*
Ga0070738_1000107267F006712GGAMQHDRPDFPTMEQIEKANHEQLARWYRFQPSGDTKEQQKIMDRIAERFKRLGGMTPALEKKIGL*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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