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_10012138

Scaffold Ga0222718_10012138


Overview

Basic Information
Taxon OID3300021958 Open in IMG/M
Scaffold IDGa0222718_10012138 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)6323
Total Scaffold Genes21 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)16 (76.19%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(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?
F019328Metagenome / Metatranscriptome230Y
F051944Metagenome / Metatranscriptome143Y
F106109Metagenome100N

Sequences

Protein IDFamilyRBSSequence
Ga0222718_1001213812F106109AGGAGGMANKLIKRSAISRRKNLLSALDKAFNELNEFTQWLGFSPDNVEYNCCSSCLPGSKYVENASNYVAYNIQDKQGYNQAYKENKDNTTWDGYPESHVGEYIYLQHRGESHASYKLLIGILKQHGITTEWNWSSDIKLKVYLTKYAHFN
Ga0222718_100121385F019328AGGAGMPNIFDEPKELKKWAIKLANACGGQRVEKTLVMTKVNPQRVAELMDEFVKDHNENTIKIAKQIEEE
Ga0222718_100121388F051944AGGAGMRYQVISVSVYGGTIRYEFDNKHEALCKVRELKDYGDMFIVKLIELQTV
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