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 Ga0075028_100000006

Scaffold Ga0075028_100000006


Overview

Basic Information
Taxon OID3300006050 Open in IMG/M
Scaffold IDGa0075028_100000006 Open in IMG/M
Source Dataset NameFreshwater sediment microbial communities from Pennsylvania, USA - Little Laurel Run_MetaG_LLR_2014
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)85081
Total Scaffold Genes87 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)58 (66.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Sediment → Unclassified → Unclassified → Watersheds → Freshwater And Sediment Microbial Communities From Various Areas In North America, Analyzing Microbe Dynamics In Response To Fracking

Source Dataset Sampling Location
Location NameUSA: Pennsylvania, Clearfield County
CoordinatesLat. (o)41.170727Long. (o)-78.4726Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000036Metagenome / Metatranscriptome4352Y
F000260Metagenome / Metatranscriptome1431Y
F003988Metagenome / Metatranscriptome458Y

Sequences

Protein IDFamilyRBSSequence
Ga0075028_10000000626F000260GGAGGMNWKSKLILGILTAVAMFLLTYALPRGGPVRDAALAQFPLTVGVWAIFVLLFVKLK*
Ga0075028_10000000627F003988GGAMVKRYYTVARAKGSVKFTCTQCAHHVTTLDFDPRAGNQRTQAAAAINQHATQVHHEPVMFSSFDTQRIWRA*
Ga0075028_10000000660F000036AGGCGGMAYKEVFWMACDSTEPLRAEYGPFHTRAEAEAEAQNLGFGYLLRYEHILGDDEEIQEVRCIFIERPGAVQPEDHSITLHTRCASCGESAAHEKSWQAEVWADIHEFEHSRHRVRLFEHVRGALKEIGGWRH*
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