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 Ga0055584_100031946

Scaffold Ga0055584_100031946


Overview

Basic Information
Taxon OID3300004097 Open in IMG/M
Scaffold IDGa0055584_100031946 Open in IMG/M
Source Dataset NamePelagic marine sediment microbial communities from the LTER site Helgoland, North Sea, for post-phytoplankton bloom and carbon turnover studies - OSD3 (Helgoland) metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5175
Total Scaffold Genes14 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (57.14%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
All Organisms → Viruses → environmental samples → uncultured marine virus(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Neritic Zone → Unclassified → Pelagic Marine → Pelagic Marine Microbial Communities From North Sea

Source Dataset Sampling Location
Location NameHelgoland, North Sea, Atlantic Ocean
CoordinatesLat. (o)54.18194Long. (o)7.9Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002528Metagenome / Metatranscriptome551Y
F003106Metagenome / Metatranscriptome507N
F009001Metagenome324Y
F012662Metagenome / Metatranscriptome278N
F088798Metagenome109N

Sequences

Protein IDFamilyRBSSequence
Ga0055584_1000319461F003106AGGMSNEKQTRGPTWRMREWGRTAYRNRQAKLRAEGESSKTEAAKRLLKVMAPRLGKRVDDFMYTFGGNTQHTTPLFLTFVLDMCPYQIASMAMQTVLDNLQFNLPVGRMAYKIGKAFENQARWDKAVEDMHPHKRDLLGLDDRSKAMKLKQFYDYEDERFTLWDSKCKAGLGAWLLEEIRIETGIWEVGFAVGAQKGHKPERICLPSGEYTDWVKRFDAWKETTRVFKMALPDEPIDWYELVGGGYSLKHMPP
Ga0055584_10003194613F002528GGAGGMKKKTTPTTKSTQPSDEAAIDLDPTLPVIKIVSEEEEMHVKMEMEMEDETYDMLVKWGKEIASDEDYINIAIADGLKHLIASDK*
Ga0055584_1000319466F012662GGAMKETLLQPADMIEELMYHIMWNEFDGDLDPNHKYFPLYLSLQQLLEDETRRLEE*
Ga0055584_1000319467F009001AGAAGMSVTYFLTDHNGRKIAFFYRIDNERYLTTPQLIWACRDYPEYRGTCASKEEAFEAFKSVMRELNKNLTARKKCKECDSDLHLRENESNLCTKCNPITT*
Ga0055584_1000319469F088798N/AMNKQIDKLWDLLVNYELASDSTLQLVTRLNGYTLETMENVLYALTGYHSYEQFMENER*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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