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 Ga0335001_0023842

Scaffold Ga0335001_0023842


Overview

Basic Information
Taxon OID3300034064 Open in IMG/M
Scaffold IDGa0335001_0023842 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME14Nov2013-rr0054
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3596
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (9.09%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (20.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → unclassified Proteobacteria → Proteobacteria bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater → Freshwater Microbial Communities From Lake Mendota, Crystal Bog Lake, And Trout Bog Lake In Wisconsin, United States

Source Dataset Sampling Location
Location NameUSA: Wisconsin
CoordinatesLat. (o)43.0995Long. (o)-89.4045Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005293Metagenome / Metatranscriptome405Y
F006181Metagenome / Metatranscriptome379Y
F019614Metagenome / Metatranscriptome228N
F029411Metagenome / Metatranscriptome188Y
F040616Metagenome / Metatranscriptome161N

Sequences

Protein IDFamilyRBSSequence
Ga0335001_0023842_1312_1446F040616N/AMIDPEDIAYEDSVSSDTAGWPGDGSGEDDFADYNQNEAGDYYNE
Ga0335001_0023842_2115_2357F019614N/AMNVASISSNKIQVEYSAMPGDNREFLTFSVPNGWDDVKKLTNKVLTYNNKDFTFSGWNSDRNECYFVRLVNGPSFVATIR
Ga0335001_0023842_248_400F029411N/AMNVDFSTIDPQNEMSDLYTPDYREQAPNEDGYLDQSYEDRFELPCMEDYQ
Ga0335001_0023842_2602_2961F006181N/AMKRNLINIIYPDEAVNSFVMTTDMSTADILERVFAEWNHGSGRECEMFINSKKRSLSVNDIVCVNGTYFQCASVGWYEVSPEYVNALEEAVAQHPSRLDGAWFALSEVMWGRKCVVETV
Ga0335001_0023842_447_749F005293AGGAMNVDSVPFIPTRDDLIGFISDTYKEINGFRPRPNWSELTYNQLDQWGQRLSAEVVTYRKQEVIRNRIARGLRRAQQRAWVEKKRSYFTPATFTLGNVVNF
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