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 Ga0272380_10009014

Scaffold Ga0272380_10009014


Overview

Basic Information
Taxon OID3300029959 Open in IMG/M
Scaffold IDGa0272380_10009014 Open in IMG/M
Source Dataset NameEPA Superfund site combined assembly
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)14001
Total Scaffold Genes31 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)30 (96.77%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Archaea(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Engineered → Bioremediation → Tetrachloroethylene And Derivatives → Tetrachloroethylene → Unclassified → Bioremediated Contaminated Groundwater → Bioremediated Contaminated Groundwater Microbial Communities From North Railroad Avenue Plume (Nrap), New Mexico

Source Dataset Sampling Location
Location NameEspanola, New Mexico, United States
CoordinatesLat. (o)35.992Long. (o)-106.0797Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F038519Metagenome165Y
F060548Metagenome132Y
F089758Metagenome108N
F094797Metagenome105N

Sequences

Protein IDFamilyRBSSequence
Ga0272380_1000901421F038519GGAGGMKMYGIATDLGDDWAGPYVDQELLKKTLAIIQKVDPNAEIVSKNTDPFSEQILAGQLPYRIHVDLVDGMPQLPADVQITWPPGEMEGIQSGNLECREYFVWAESEKAALRKLATLNKATPQPSNSKAATSEAF
Ga0272380_1000901426F060548AGGAGVSTVTNRPKQRRVTDFVDMQVATLIKHHACEELCIEDLVAVALKEMPSFGWTDDKIRHSVNRFEKRGKMASKYVVRRKRLCRVPYLI
Ga0272380_1000901430F094797GGAGGVSGSDALEDIMDPGDLPDPETFFPTPAEARALSRDKGFETIWKGGILTGCHLVLKLQISFNAKGRLLYNGKPYSRGIWGWRPPKFIRLQGREAKEEPNSRNSHPEIYLTTLNGVELKLDACPCGGELVKDSCECLYCRDCGTVYDHHQ
Ga0272380_1000901431F089758GAGGMTTIQEQPGYPGDFGKAFESEDCLRKARELCKTGNLLKNSDDKVYGTPPGLVSIVDLSHAMHRACSRLAKVLEDAGWFQVLELPGYYFPPESKEGLE
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