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 Ga0208362_1000019

Scaffold Ga0208362_1000019


Overview

Basic Information
Taxon OID3300020558 Open in IMG/M
Scaffold IDGa0208362_1000019 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 13OCT2010 deep hole epilimnion (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)53877
Total Scaffold Genes88 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)17 (19.32%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families5

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Epilimnion → Freshwater → Freshwater Microbial Communities From Lake Mendota And Trout Bog Lake, Wisconsin, Usa

Source Dataset Sampling Location
Location NameLake Mendota, Madison, Wisconsin, USA
CoordinatesLat. (o)43.098333Long. (o)-89.405278Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F013763Metagenome / Metatranscriptome268Y
F018176Metagenome / Metatranscriptome236Y
F033039Metagenome / Metatranscriptome178Y
F042332Metagenome / Metatranscriptome158Y
F079652Metagenome / Metatranscriptome115Y

Sequences

Protein IDFamilyRBSSequence
Ga0208362_100001928F079652N/AMKNRDIIMRRMERVEGGIEKLQFALRQNNWVVVDEIIQEMRDNINDAKAFVQQEPLGPGEINNY
Ga0208362_100001930F013763N/AMSEFQLQPGQGYIYIGEYFHKFGKNVPTEKKIGKTTSLLDIPQIDDYAFSLDFHTPDIYLVEDVEKIYKALTTILEHDQLKEDWFEDTDGDLKDRVTKFMTAFGYKEIADVDGDGIPDHLDNVIG
Ga0208362_100001934F018176N/AMLNLLTPILLLLSPIDTTKVNVNVTNVQHIQTIGGRDVTFGVKETIEELLIEKGYIPDDSLGMSVQVSIDSIYSPQQIVNIMGLQWLKKDYIVETTICIGTGCHKSVGVRKTFIFAAFLNVENNEVPLNRKAFSKALQESLTKTTKQL
Ga0208362_100001968F033039N/AMSPHQKAALEIVHDYYFMLPNNGYMYGGCNSCDSRYKEGIECALLSVKRIILTLEFMAVESDAAFIMDRINFYDEVQAELYKIKEGNGGVSLNDLMEVFKK
Ga0208362_100001969F042332N/AMKFKAENNEFHHGFQMTFDNGCTISVQFSKYNYSDQGETTAEVAAWNSNDDWMIWDGDNWVILTNGDTDVMPRQTTDDVAMLISELVKLK

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