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_10000404

Scaffold Ga0222718_10000404


Overview

Basic Information
Taxon OID3300021958 Open in IMG/M
Scaffold IDGa0222718_10000404 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)45320
Total Scaffold Genes105 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)27 (25.71%)
Novel Protein Genes9 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (22.22%)
Associated Families9

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?
F020156Metagenome / Metatranscriptome225Y
F031840Metagenome / Metatranscriptome181N
F040577Metagenome / Metatranscriptome161Y
F041707Metagenome / Metatranscriptome159Y
F066686Metagenome / Metatranscriptome126Y
F082523Metagenome113Y
F086721Metagenome / Metatranscriptome110N
F091571Metagenome / Metatranscriptome107N
F099289Metagenome / Metatranscriptome103Y

Sequences

Protein IDFamilyRBSSequence
Ga0222718_10000404102F099289AGGAGMITIEDANNEKFYINPVNVVYVKQREKFWKILLTTGEAIMTKNTEGAMAIVNAIKRY
Ga0222718_1000040425F086721N/AMKIKDIIFLKANDNQVSAHLYYSTEDVAYESMSSVGVSRKQAIFNLCKQGKLSWDLFAEAKAIALTKKDPRFEKKTFVSRNSVRDQRLADICDDMRCSVAEAVAFLDRGIAPCGW
Ga0222718_1000040434F031840N/AMKTFDDLTFTPHANLQDLGVQASLTLDNGYAFSVVGNTEGGDFFYGDHPNTYEVAVFNQRGDFVPLGKHDDVLAHQSPLQISKLIKQFDLDGILHEKLLVDIRQDNIQEDACKY
Ga0222718_1000040435F091571N/AMQVSTATKKYLITKSNDGCVIAVLSEDKTHKSDFFIGEATMKKNIDNNTFIRHNHLNYNNEPIYIYHEDL
Ga0222718_1000040444F066686N/AMEELQNIIHDLQARLAIVGGGRIIITSESVSVSLGEEHEDFEIQENQTDVEMYNQMWGQ
Ga0222718_1000040461F040577N/AMTELQRISIEIVEIFQNKISKLTKDQAEQLNIHNNSMNFYVQLGDEQKALWEAKNTLEYLEEITQ
Ga0222718_1000040471F020156N/AMQTYRQILIEELQRLVKQESFNVSHAKDILELFDDEIEDGHSDTTAYHKATQDIDNVKAGEWDL
Ga0222718_1000040475F041707GAGMKDYNIQLGLTHEDIMLLLSGEISTFNFVPTEDTDYNDRIRISIKEVEEDATLSECMNLSVDTTSAIL
Ga0222718_1000040487F082523N/AMSGEAHSVFFRRTNQTEESNWELCKIFEGRIMRSPVKKHMKFYPNHVGQVHLYEKGGDDMPKWMEKDLRFDGTFQLMISTYESWYEDADIYESFDRSDSFVSLAKQFAEQYNLKYYHRGIYELEEELEKKCLTTINN
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