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 Ga0136847_11225276

Scaffold Ga0136847_11225276


Overview

Basic Information
Taxon OID3300010391 Open in IMG/M
Scaffold IDGa0136847_11225276 Open in IMG/M
Source Dataset NameFreshwater sediment microbial communities from Lake Superior, USA - Station SU-17. Combined Assembly of Gp0155404, Gp0155335, Gp0155336, Gp0155336, Gp0155403, Gp0155406
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterUniversity of Minnesota - Twin Cities
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2130
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Sediment → Freshwater Sediment → Lake Superior Sediments

Source Dataset Sampling Location
Location NameLake Superior, USA
CoordinatesLat. (o)47.1675Long. (o)-89.65985Alt. (m)Depth (m)190
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002666Metagenome / Metatranscriptome539Y
F003507Metagenome / Metatranscriptome482Y
F009760Metagenome / Metatranscriptome313Y

Sequences

Protein IDFamilyRBSSequence
Ga0136847_112252761F002666N/AMRGCGRQCRGQGKVFVSLVRQTEPQLLTTGDPVVSLAQTAQAQVQRAAELTEDQRARWDTTLTLALVTQQQLAPQSRRLPHGKPLTRCKIVNAYDPTIAPICKGQSNCPTQFGRKPGLSAEPATGFIFGVQLPVGNPSEGSYVLPLVDKVQTAISPVPTRTTPTLHSLAGDWALNDAKLRETLHARGILTVGIPRTGEPLSPTPTPEAIHQGLTTAGLHRKRTPRQVQLACAAGYSRPVVESISASLLSRGAAQLRYKGWHGACVQVTMAVLAHNAATVRRIRLGRLTTRAQKFRRLLHLKAPNLLKNKEGLN*
Ga0136847_112252762F003507N/AVLPELLTQFRSRLEEPLLNELLALQAAAAMEQGVVSPAHLVVDTFPSEQGSQRVNAAATLDKAKKKSARSLRRLRTRVSRRAQP*
Ga0136847_112252763F009760AGGAGMRILRHLQHWLSGPGRPLIVADFVPETHPLRQWADTFPWAALVAAVERNFTQRFPTPTARGRAPVATRVLLA*
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