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 JGI12547J11936_1010128

Scaffold JGI12547J11936_1010128


Overview

Basic Information
Taxon OID3300000736 Open in IMG/M
Scaffold IDJGI12547J11936_1010128 Open in IMG/M
Source Dataset NameFreshwater microbial communities from dead zone in Lake Erie, Canada - CCB epilimnion July 2011
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2462
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (62.50%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Epilimnion → Freshwater And Sediment → Freshwater And Sediment Microbial Communities From A Dead Zone In Lake Erie, Usa

Source Dataset Sampling Location
Location NameLake Erie, Canada
CoordinatesLat. (o)41.77Long. (o)-81.73Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000980Metagenome / Metatranscriptome814Y
F001125Metagenome / Metatranscriptome769Y
F006984Metagenome / Metatranscriptome360Y

Sequences

Protein IDFamilyRBSSequence
JGI12547J11936_10101283F000980N/AMTTYNKYTWVCTGDCDALIEYTIKDGYGWPAGEMNLTCRCNSNCTLVSVEDATIPYTDTPLQTEEETMEESTVTTTPIPDTYNPNLLVTYKVIRGYSDAEYATDKVTSIEWDLHNARQAQKQNGVYQDKINTVKDIITEAYADSDDQDTLRAIAEALGIELVREVLFTATLEVSGTYTYNVLDSDYELDLDSEVTDALYADSNNGNITIDDTEVCHVREA*
JGI12547J11936_10101287F001125AGGCGGMGDRANFGFKQSNDTTIFLYGHWAGHGMLERLANAVEAARPRWTDESYATRICVSQMIGEDWKSETGWGLSVNRILDNEHKIPVIDWAEQTFTLMEEDLQTVVFSLSLDKFCSKYSQLVMV*
JGI12547J11936_10101288F006984AGGAMPNWCYNTLTIQGPKSEVDMIKDRLNSPFTLAQETYGMGDISTMGFPTKIELVEYNNPVFAFHNIHSYKDDGITDEEY
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