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 Ga0209492_1001032

Scaffold Ga0209492_1001032


Overview

Basic Information
Taxon OID3300027721 Open in IMG/M
Scaffold IDGa0209492_1001032 Open in IMG/M
Source Dataset NameFreshwater sediment microbial communities from Prairie Pothole Lake near Jamestown, North Dakota, USA - PPLs Lake P7 Core (1) Depth 10-12cm May2015 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8595
Total Scaffold Genes25 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)16 (64.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

Taxonomy
All Organisms → Viruses(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Sediment → Unclassified → Freshwater Sediment → Freshwater Sediment Microbial Communities From Cottonwood Lakes Research Site Near Jamestown, North Dakota, Usa

Source Dataset Sampling Location
Location Namenear Jamestown, North Dakota
CoordinatesLat. (o)47.0956Long. (o)-99.1001Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003066Metagenome / Metatranscriptome509Y
F003522Metagenome481Y
F011921Metagenome / Metatranscriptome285Y
F019123Metagenome / Metatranscriptome231Y

Sequences

Protein IDFamilyRBSSequence
Ga0209492_10010321F003522N/AMALQSERCIVKEKILAYLTEPRTINDIAEHIQSNYPITKNILVEMRDANVIHAYKDNQNRLMHYYVPQPHPLQTIFGHTVNFTSDQIKGITSHNADDAKHNLQHKTTQETYGESVAYTLTRYD
Ga0209492_100103213F011921AGCAGGMDMVVSFFVLGVYNMANGLEHIANILKRLNDEIKLDNDKWERANESTTTLRSSNDATTSTRITTKGEKNEL
Ga0209492_100103218F003066N/AMVWKTEENTHRKDGVLLMAKKEPVAWLYEEYDVKSGDLKKSYLWSFHPNQLSYLNDLKNTTHHIKITPLFPGEPVEEYKGISKYDSKKLTEAYGGL
Ga0209492_100103219F019123GGAGGMVDSNPLTQEEIIKAYKEAFGYGSQVVTLDRIFKFARLIEQAHGIKNG
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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