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 Ga0208009_1003164

Scaffold Ga0208009_1003164


Overview

Basic Information
Taxon OID3300027114 Open in IMG/M
Scaffold IDGa0208009_1003164 Open in IMG/M
Source Dataset NameDeep subsurface shale carbon reservoir microbial communities from Ohio, USA - Utica-2 Time Series FC 2014_7_16 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4532
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (76.47%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Deep Subsurface → Unclassified → Unclassified → Deep Subsurface → Deep Subsurface Shale Carbon Reservoir Microbial Communities From Ohio And West Virginia, Usa

Source Dataset Sampling Location
Location NameUSA: Ohio
CoordinatesLat. (o)40.178Long. (o)-81.073Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003690Metagenome / Metatranscriptome473Y
F005531Metagenome / Metatranscriptome397Y
F008132Metagenome / Metatranscriptome338Y
F014142Metagenome / Metatranscriptome265Y
F015730Metagenome / Metatranscriptome252Y

Sequences

Protein IDFamilyRBSSequence
Ga0208009_10031641F014142AGGAGMSHSVSVVVEPTHPMSSSNTKDKNIFRLANGNYISRMAYVYMVADKGLLSHRYLSPNESKWVMSNRKDN
Ga0208009_10031643F005531AGGAMTITYSLWQGSQLLSVDNTAKNSEEILAVMKELEKLGKGFTYNVRKVEVK
Ga0208009_10031644F008132GAGGMMTKWDTIQADVADAYTYLDEEEAYNNALDNEDEEDVFGFAKAVEIDHLTDEQLDEIGKMFGDN
Ga0208009_10031645F003690N/AMTINGFELIISNEYGIEFDSFLGSIYLPWHTILITTALLIAYKIYKRKKNK
Ga0208009_10031647F015730N/AMLTQKTLDKIVYEYQHGGVKNNHPELTTHERKALLKHLFSLPTYCSCCVKG
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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