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 Ga0075017_100000494

Scaffold Ga0075017_100000494


Overview

Basic Information
Taxon OID3300006059 Open in IMG/M
Scaffold IDGa0075017_100000494 Open in IMG/M
Source Dataset NameFreshwater sediment microbial communities in response to fracking from Pennsylvania, USA - Alex Branch Run_MetaG_ABR_2012
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)22192
Total Scaffold Genes28 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)22 (78.57%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria(Source: UniRef50)

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)41.1752Long. (o)-78.4168Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004615Metagenome / Metatranscriptome431N
F006757Metagenome / Metatranscriptome365Y
F050089Metagenome145Y
F073812Metagenome120Y
F097000Metagenome / Metatranscriptome104Y

Sequences

Protein IDFamilyRBSSequence
Ga0075017_10000049415F097000GGAGGMQISLKNTLKTARLGFDARLAEVLIARPDLSYAQIEKDFGISETVIRRVMRQFNIGARKRGPKPGKPQRQVSRG*
Ga0075017_1000004944F006757N/AMKSLVVLPPVKATVRAALLNIAVYKDIPTAQLIAAARALPGGTKVHCPDRLTAIVLLLGTQPVELN*
Ga0075017_1000004945F073812GGAGMADPRQELESALSPLAWVLNFIWDTIRLMFWFFMSPILIVSWCFYHPVKARVYFVSAIPLLWSGNRATRGVLVFFLLLIATLFGRTMHKICWWIIKLALVAGLIWYIVLIFKLA*
Ga0075017_1000004946F050089AGGAMARQVFVFDAQPGRKVCDFCSSSPTSRLYACRNFIIPRTKHAVFQHESIGAWAACDRCALVIDAGHWSQLTDRAFRRFCKRHGVSRYEELEVREQFREIHQLFKEHMIKDV*
Ga0075017_1000004949F004615AGGAGGMKKMCLVLCLVCLVSSVALAQGKTNVQWKCDKPSDQHSIPVGDKPGHAYGIEQINCTAIKGDIAGNKMKSGIGTEFLYLKGDDVTGHGEFVESMENGDKNVYKYEFSGTMKDGAFESGTNKWSLIEGGGKMKGGKANGTCKAKANPDQSTSFDCLGTYTPATM*
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