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 Ga0208050_1004852

Scaffold Ga0208050_1004852


Overview

Basic Information
Taxon OID3300020498 Open in IMG/M
Scaffold IDGa0208050_1004852 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 13JUN2010 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)1660
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (85.71%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Associated Families6

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

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)43.099444Long. (o)-89.404444Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000821Metagenome / Metatranscriptome876Y
F001477Metagenome / Metatranscriptome687Y
F015702Metagenome252Y
F017972Metagenome237Y
F044984Metagenome / Metatranscriptome153Y
F075748Metagenome118Y

Sequences

Protein IDFamilyRBSSequence
Ga0208050_10048521F017972GGAGGVRTSHLQLVTHEHSATIKTKSDVLSPYGPVNPASTTLLAQETLRANQEARLLELLNSLESVVDNLNFKSFTAYDTLVLAME
Ga0208050_10048522F044984GGAGGMADEVKRRMETASRKAVRDRNYRRARDRALARLAHLYPDTYKQLLEMEKKQDELQGKKWISIDGTTVLRVGVHTRANGANDLAYSSNAGENEGNNGGEA
Ga0208050_10048523F001477AGAAGGMSNVYTIHPPKSDLILFYEVVEPDGSNTWGGADAEQCMQWLTLAPNNSRVLVSAWDSDEEDAHLVGQTIDITEIIQEARKVGR
Ga0208050_10048524F015702AGGAGGMAIKEVELEYTVYNLVRLSEKVWGENAIEYLAGRLESVITYNQMKVLVDSLKKEANE
Ga0208050_10048525F000821GAGMNKEYLEAKFDLCIDQAERNIKEEEIAEAIKNLKRANSALSQLFGFEEEQEDGN
Ga0208050_10048527F075748N/ASTQNFNAYIEGIDTLNGQSLSLVIDIAGVDGEEWTDEECLETIKEIVDMTNAYKNTHAWD
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