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 Ga0075029_100004827

Scaffold Ga0075029_100004827


Overview

Basic Information
Taxon OID3300006052 Open in IMG/M
Scaffold IDGa0075029_100004827 Open in IMG/M
Source Dataset NameFreshwater sediment microbial communities from North America - Little Laurel Run_MetaG_LLR_2013
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)7476
Total Scaffold Genes20 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)18 (90.00%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (100.00%)
Associated Families6

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 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?
F000042Metagenome / Metatranscriptome3762Y
F001533Metagenome / Metatranscriptome676Y
F001851Metagenome / Metatranscriptome626Y
F008095Metagenome / Metatranscriptome339Y
F029870Metagenome / Metatranscriptome187Y
F047848Metagenome / Metatranscriptome149Y

Sequences

Protein IDFamilyRBSSequence
Ga0075029_10000482710F000042AGGAMKTIKFVVKVNRGGRAAEYVQRVDPTPIHLTTNPKLASLMGRLTAQDAVESLQNSHCNAELLSVPVA*
Ga0075029_10000482712F001533AGGMDHLGVLRDKIGRLRAEIADIQELNQQFRRDGGKGADVQVAHGQRNERLQAIQHELVKLADLSRRVVSTEQMKEKHRSRLHLFTQKRAS*
Ga0075029_10000482713F008095GAGMKRMESTSMDKSRDQDQAKGAVEQDQNNQGGNTSMNGQLGHRDEDVNLKGADSDLSG*
Ga0075029_10000482718F047848AGGAGGMEYVHVFVLRTLCFDEDGEIKTRNVAVAFDMFEAEDHRNKGVENGYDTFVVPGNWREEQ*
Ga0075029_1000048272F029870AGAAGGMQGHDLRSRVLAKLTNARCELEDALNLSIPAARYDPVIIPEPLCNKLLAMIVDLKCLLRQIEGLQ*
Ga0075029_1000048279F001851AGAAGGMSATNIFLGLLIALFTILLLRWLRKLKPEITGFQSQRMCPSCGLITSRLKARCLECGKPLSVVYSTSKK*
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Institute for Fundamental Biomedical Research
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