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 Ga0070731_10000030

Scaffold Ga0070731_10000030


Overview

Basic Information
Taxon OID3300005538 Open in IMG/M
Scaffold IDGa0070731_10000030 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen03_05102014_R1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)280538
Total Scaffold Genes244 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)185 (75.82%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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?
F000042Metagenome / Metatranscriptome3762Y
F000299Metagenome / Metatranscriptome1341Y
F000309Metagenome / Metatranscriptome1327Y
F001829Metagenome / Metatranscriptome629Y

Sequences

Protein IDFamilyRBSSequence
Ga0070731_10000030147F000299GGGGGMENGQKGNGSIKPSDRYDVGHVQEVIRQAHDELRQLMQQRGEVMKRIGTVKQTIAGLANLFGDAVLSEELLELVDRKTNGRQPGFTKACRMMLMEAGRPMSARDICDYFQQNMPSMLARHKDPMASVTTVLNRLVEYGEAQAVVSNGRRAWRWVTETAAPEPAAASVGELRC*
Ga0070731_1000003072F000042N/AMTNIKFVVRVNHGGTRAPAYVQRFDRIPVQMTTNRKLALMMGRFTAEDAAKSLQTSRCTPELVPVEISV*
Ga0070731_1000003074F000309GGGGGMKSDVNQSLDGTLESAVIVSWADLVHDTETGLIHIEYGFSLSGTLDYLKIWSSLSRGHWLLACEYWMSASTLHCAGVSFDNGYESGVLAHILESVMQHQTSFALPANLGRQGLLQIPTPTEEERLAAGEWIRNTFDRLGTPIAEPVLA*
Ga0070731_1000003077F001829GGAGGMRRQYLHLSAYPCDTCAGPVIAGSLAVRENEISKETDIRSVGSICLSCGHRQSTATEPARTRHLLPMEWNSAGAVKGTRTGTDLVEALNRGEQR*
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