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_10007556

Scaffold Ga0222718_10007556


Overview

Basic Information
Taxon OID3300021958 Open in IMG/M
Scaffold IDGa0222718_10007556 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)8475
Total Scaffold Genes21 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)19 (90.48%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

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?
F018178Metagenome / Metatranscriptome236Y
F039123Metagenome164N
F070064Metagenome / Metatranscriptome123Y
F082548Metagenome113Y

Sequences

Protein IDFamilyRBSSequence
Ga0222718_1000755613F070064GGAGGMGRVKSELMTDGPDDELVPTPISQVVDNIRNCDLPRNSVERHEYLRTQMKELMDGIKTNL
Ga0222718_1000755617F018178GGAGMDRLDQILDRLGQRITEWEGASREAIEAETNFKSFEASSQKAHMDAGASAAKAQTETRSSGEWANHYRTVQQASLKAETLKKKIMLGQLAFDAERTKQANQRRIV
Ga0222718_1000755620F082548GGAGMRPPRVVAQDMVKAMDAAAKQVWDSEPKKESDEKLKALVFAHVCNSYSRRGGYGKTDPT
Ga0222718_100075569F039123AGGMDKHDFTALYDQWFALHPFKKRDWVELGKVHYQAFSRESVALMTEALGQLTEEIDNFPSPKQIRAKLNQLSSSKTEGGEVKTNVTSHNETLATRLLEHIHGIEYQGKAVNRPEGVPHWVSELVESVNNQLPDDCPMNVRLARVGLAVAQGER
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