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 Ga0209668_10054405

Scaffold Ga0209668_10054405


Overview

Basic Information
Taxon OID3300027899 Open in IMG/M
Scaffold IDGa0209668_10054405 Open in IMG/M
Source Dataset NameFreshwater lake sediment microbial communities from the University of Notre Dame, USA, for methane emissions studies - PLP11 PL (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2169
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Sediment → Freshwater Lake Sediment → Freshwater Lake Sediment Microbial Communities From The University Of Notre Dame, Usa, Of Lakes That Contribute To Methane Emissions

Source Dataset Sampling Location
Location NameUniversity of Notre Dame, Indiana, USA
CoordinatesLat. (o)41.7Long. (o)-86.23Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F015472Metagenome254Y
F024112Metagenome207Y
F056602Metagenome137N

Sequences

Protein IDFamilyRBSSequence
Ga0209668_100544053F024112AGGAMEIKDYDKQRANVLNALYCSVRSAIEAENVHNNTRIEWIEDDFKVAKQKLETIEAEMRVLLGDPFAEDVK
Ga0209668_100544054F056602AGGTGGMSNWTKGFIGVAIASQVFLFIILFGCKLGDAFYISGTDLFGMVMSSVCSLVYIPAILVSHDSDKIRKKINEQLQA
Ga0209668_100544055F015472N/AHFYLNQGGTRWYSDGKVQVTGVYKDKVYDRMRQPMFWESFGNFALCYVRVGRTVFCGFTEDNNGVIQLNLGKCKVVR
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