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 Ga0222718_10025359

Scaffold Ga0222718_10025359


Overview

Basic Information
Taxon OID3300021958 Open in IMG/M
Scaffold IDGa0222718_10025359 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_27D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4043
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)16 (94.12%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (100.00%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Pelagibacterales → Pelagibacteraceae → Candidatus Pelagibacter → unclassified Candidatus Pelagibacter → Candidatus Pelagibacter sp. TMED64(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine Water → Estuarine Microbial Communities From The San Francisco Bay-Delta (Sfbd), California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)37.6183Long. (o)-122.2916Alt. (m)Depth (m)12
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006383Metagenome374Y
F021674Metagenome218Y
F031481Metagenome182Y
F054842Metagenome139Y
F062169Metagenome / Metatranscriptome131N
F069451Metagenome / Metatranscriptome124N

Sequences

Protein IDFamilyRBSSequence
Ga0222718_1002535912F062169AGGAGMSVQDHIENILSAEGQGALDAWYIAIHEHPQNAMDIHDEVVDHLVANSFMY
Ga0222718_1002535914F054842GAGGMSKNGWRKKLKAGDLVMMKDGGMAILTEVFFRFPETDPAYPHIKMLYCDDNSTGGCSSWRVEELISEAG
Ga0222718_100253594F006383GGAGGMYDKMWKVQQPGTILRARHSARRGQLALVLTKAYHEIRGTETRGNHYVKMQIVSTGERIEESLTNANNCWDIVSEP
Ga0222718_100253595F021674GAGGMERETYNSRLRSNPEDIPVGSLLRVKKWCRNNDTIRNNGEFALLVERPGGTYISHDIIFPNGARTIFVPMNWEVVSYVR
Ga0222718_100253596F069451GGAGGMKPGDLVRIRKSAIDAYCTLWFIDLAERKAPLLLMEKLNKQHWRVMRPDGTDCFLSENKLTTRMW
Ga0222718_100253599F031481GGAGVKLGDLVQRQEGWMGWERQRLGLVVMVDRAVVRVQWSGDYGTFLHPLTSLEPINEAR
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