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_10211058

Scaffold Ga0222718_10211058


Overview

Basic Information
Taxon OID3300021958 Open in IMG/M
Scaffold IDGa0222718_10211058 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)1054
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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
F069451Metagenome / Metatranscriptome124N

Sequences

Protein IDFamilyRBSSequence
Ga0222718_102110582F069451GGAGGMKPGDLVRIRKTAINAYSTLWFINLAERKAPLLLMEQLNRRHWKVMKPDGNTFFVEEENLTKRMW
Ga0222718_102110583F021674GAGGMERETYNSRLKTNPEDIPVGSLLRIKKYCRKNSIVKAHGEFAVLVERPHGTYISHDVLFPSGRRTIFVPMNWEVVSYANPG
Ga0222718_102110584F006383GGAGGMPIQDKMWKVQQPGTILRARHSARRGQLALVLTKAYHEIRGTETRGNNYVKMQIVSTGERIEESLTNANNCWDIVSEP

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