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 Ga0209068_10000036

Scaffold Ga0209068_10000036


Overview

Basic Information
Taxon OID3300027894 Open in IMG/M
Scaffold IDGa0209068_10000036 Open in IMG/M
Source Dataset NameFreshwater sediment microbial communities in response to fracking from Pennsylvania, USA - Cold Stream Run_MetaG_CSR_2012 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)87945
Total Scaffold Genes83 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)56 (67.47%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae(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?
F001535Metagenome / Metatranscriptome675Y
F017549Metagenome240Y
F041889Metagenome / Metatranscriptome159Y
F048535Metagenome / Metatranscriptome148Y

Sequences

Protein IDFamilyRBSSequence
Ga0209068_1000003612F041889GAGGVRAALQPEASPERFVSANEAARFLSVTRRYVLELARRGIQGAYPIGTGSQRKIWVFRLSELATAVMQKESSAPIHKFRKVCDPALGSPR
Ga0209068_100000362F048535AGGAGMTQEAIKALTDVELSQVVVWTQAEVKARTEHRKQEAIARIKELAGAVGVSVAIGGVRGRPARVRAKPSLKG
Ga0209068_1000003644F017549GAGMRFLKMLSKPAAMASGWTSAVLCFSAASGYWLAGQRGRALCWAVLGAVEVAAIVL
Ga0209068_1000003665F001535AGGAGMPMETQKESSPKHDPTQITEHVEGAHQILKALQEKMGEHPELGAAITKLEMALNLLAVKTGGVL
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