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 Ga0222717_10004162

Scaffold Ga0222717_10004162


Overview

Basic Information
Taxon OID3300021957 Open in IMG/M
Scaffold IDGa0222717_10004162 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_18D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)10722
Total Scaffold Genes32 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (21.88%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families4

Taxonomy
Not Available(Source: )

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)37.0966Long. (o)-122.4216Alt. (m)Depth (m)38
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F032332Metagenome180Y
F035780Metagenome / Metatranscriptome171Y
F051263Metagenome / Metatranscriptome144Y
F057396Metagenome / Metatranscriptome136Y

Sequences

Protein IDFamilyRBSSequence
Ga0222717_1000416218F057396N/AMVKVKVVYMNGKETEYDVDYPKAYIAKIMDSENDLMPERKAVKEIYASSKLIAEFIGSELRLVEPKPKKTAGMGRYKGHTVPAGCDVGQYAVDEALKIAKDLKDKITAEEDWNEYQAEILYAQKMIKENIWVMDHTGGDIEITYS
Ga0222717_1000416222F051263N/AMASIKLIPEFESFNEAEKHEFNPNETAERLKRREQQNIERFRAAQDREDPFGVEYYQLRIAIDKIDIKKLGYQTKIHQLKQKYGK
Ga0222717_1000416228F032332N/AMENNYGNGFNDDFIKSLLLTLEQTDFEEFMNLSYAVMMHNPSQILKRKDAMESKVEAINGLIKYFESVEEYEKCTNLQKLKQLLFLNTPDDKDNI
Ga0222717_100041625F035780N/AMSIQIKTEKEVWWASTKEYDLEVNGENVSVRIAETPKETEFFEWNETTGWEPADIDSGLMKEVYDAWSNGEIE
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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