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 Ga0070735_10000065

Scaffold Ga0070735_10000065


Overview

Basic Information
Taxon OID3300005534 Open in IMG/M
Scaffold IDGa0070735_10000065 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen07_05102014_R1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)131990
Total Scaffold Genes119 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)98 (82.35%)
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?
F000065Metagenome / Metatranscriptome2788Y
F000749Metagenome / Metatranscriptome908Y
F001932Metagenome / Metatranscriptome615Y

Sequences

Protein IDFamilyRBSSequence
Ga0070735_100000654F000065GGAMAHAVNKRIPKVRKAPQPPLSRAGAIPDSDRAKRPPLSEPDATSQELTPGDRVEGLGDFGKPTGEFGTVKQANEDDAVVKWDDDGRVRVHQPSLKKV*
Ga0070735_100000655F001932AGGGGGMRQKLVLWFLLVLTGFVIGFILQYSRLQRVQQDLSASTKQLGSCHSSQQLAQLRDTTTMMYLEVAQKNYGKAGEYSGAVFDQAQQIASSTEDPALRNFLREVLVTRDQITADLAKGDPAALSEIQRLLSNLEHTAKH*
Ga0070735_1000006561F000749AGGAGMSARGSSPQLAPHVTIRVSGKLFQGHLLYLDQLVQSASECRLWPLLNLSSLEELDRHALSYLMNGEDTKFGIVACPNFIRDWMEHERYRSAA*
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