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 Ga0075029_100018198

Scaffold Ga0075029_100018198


Overview

Basic Information
Taxon OID3300006052 Open in IMG/M
Scaffold IDGa0075029_100018198 Open in IMG/M
Source Dataset NameFreshwater sediment microbial communities from North America - Little Laurel Run_MetaG_LLR_2013
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3912
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (88.89%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Sediment → Unclassified → Unclassified → Watersheds → Freshwater And Sediment Microbial Communities From Various Areas In North America, Analyzing Microbe Dynamics In Response To Fracking

Source Dataset Sampling Location
Location NameUSA: Pennsylvania, Clearfield County
CoordinatesLat. (o)41.170727Long. (o)-78.4726Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001596Metagenome / Metatranscriptome666Y
F001643Metagenome / Metatranscriptome659Y
F010114Metagenome / Metatranscriptome308Y
F017708Metagenome239Y
F105941Metagenome / Metatranscriptome100Y

Sequences

Protein IDFamilyRBSSequence
Ga0075029_1000181982F001643GGAGMLGELMNIPTDTLLDMLYIVLASDFAITANDVAEIEQIQRELERRGWEQCWSFQAVN*
Ga0075029_1000181985F001596AGGAGMSWFHSNTAAVDAHNHASPAEIVACFQDQRKVLDRLAFLITGDQAMADRAVVQACEITLQGNSPFRDWLLEWAKAATIASAISHGTEAIRVCEAAYKDRRCPHVEHLSRGDAEERAASLDLLLAADAQELIAELDPLCRAVLVLRVAIRSSIQDCALRLNVSRAAVLGANCHAMTWRHDGHVKPVEENRDASHAV*
Ga0075029_1000181986F010114GAGGMIIELNDDETRLLYNALLEQAQEHFSYASASEVAERLYKLATRFGRPARELPNITIA*
Ga0075029_1000181988F017708AGGAGMAKVIEFYIPKSFRKPSRTLAQPLLGKIIEFCPQTKRSA*
Ga0075029_1000181989F105941GGTGGMRKITNRGFTLQEVLIMAAMNVAPALIVTDKASKPSGAAARTEIHSDPGDCHGKSD*
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