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 Ga0222713_10010034

Scaffold Ga0222713_10010034


Overview

Basic Information
Taxon OID3300021962 Open in IMG/M
Scaffold IDGa0222713_10010034 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_649D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8565
Total Scaffold Genes22 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)20 (90.91%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (100.00%)
Associated Families6

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)38.06Long. (o)-121.8Alt. (m)Depth (m)12
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000263Metagenome / Metatranscriptome1424Y
F000311Metagenome / Metatranscriptome1326Y
F000441Metagenome / Metatranscriptome1136Y
F000450Metagenome / Metatranscriptome1126Y
F000852Metagenome / Metatranscriptome860Y
F007470Metagenome / Metatranscriptome350Y

Sequences

Protein IDFamilyRBSSequence
Ga0222713_1001003410F007470GGAGMDYQDGFEDGVKFAREVIIANIKLWAEDSEDGQVYDDIAERIEFGTVDYDL
Ga0222713_1001003412F000450GGCGGMGDRANFVFVQPNGHSIVLYGHWAGYQMLQNLAEAVIKAQNRWSDPSYATRIAISHMIGEGWAMETGWGLAVDEILDNEHKVAVVDFQQQTFSLHEEAPYADESNKVRGMSNEAIFTQDLSTFCEKYSDQLVRV
Ga0222713_1001003417F000263AGGMNAEDIGLPPHLQRMVNSGVTGLDIMHGELKNLMLIGEQDLIRAQEAEDKSEEAMDSMERTYAEGYIDALTSMYKLTYDLSFAIAEKENANV
Ga0222713_1001003420F000441AGGAGGMKMSDQYIDEVLAKAQQLLWGGSETENIEAHNLISKLIRDRMEDSESGAE
Ga0222713_1001003421F000852AGGAMTTKREYLKQQGITVGARGRFSGAAKTAIQEAINKGVQFTPEKPQKAK
Ga0222713_100100349F000311GAGGMYFELTAPNQGALKGAFWDAELLGLDPQSIAPLTFNIGTGSIEKVSRLRDKYNLTESYTSEYEPTGYTGR
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