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 Ga0075018_10046392

Scaffold Ga0075018_10046392


Overview

Basic Information
Taxon OID3300006172 Open in IMG/M
Scaffold IDGa0075018_10046392 Open in IMG/M
Source Dataset NameFreshwater sediment microbial communities in response to fracking from Pennsylvania, USA - Cold Stream Run_MetaG_CSR_2014
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1793
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria(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 NamePennsylvania, USA
CoordinatesLat. (o)41.1289Long. (o)-78.4195Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003776Metagenome / Metatranscriptome469Y
F003950Metagenome / Metatranscriptome460Y
F084689Metagenome / Metatranscriptome112Y

Sequences

Protein IDFamilyRBSSequence
Ga0075018_100463921F003950N/ASQPMIASKLELSPCAVSVLGQLFVEGPTSDNNITSRAGRCHLVSAGLAFHEAGLSSLTPDGERLAMEWDLCSLYARRDRRWYLKVRTNARPEGAAVSHSESSAAVR*
Ga0075018_100463923F084689AGGMIATSHERQSWKDNPKAKKIAATISLLLIAGLIAVLAFALLSMQRSSPSACSD*
Ga0075018_100463925F003776N/ALDSMSLDELFMLHEQLTATLEARITAEKKALKDRLKEALSRK*
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