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_10032001

Scaffold Ga0222713_10032001


Overview

Basic Information
Taxon OID3300021962 Open in IMG/M
Scaffold IDGa0222713_10032001 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)4227
Total Scaffold Genes14 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (21.43%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Archaea → unclassified Archaea → archaeon(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)38.06Long. (o)-121.8Alt. (m)Depth (m)12
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F024743Metagenome / Metatranscriptome204N
F034825Metagenome173Y
F047570Metagenome / Metatranscriptome149N
F075864Metagenome / Metatranscriptome118N

Sequences

Protein IDFamilyRBSSequence
Ga0222713_100320011F034825N/AMTTLEQLVADHTILIQKIIAEAKNEALNDASKAKIKTTNVIDAPVQKLDLFSHISSTFDNLIKDKKEKNILTPYVNPYNWPRNTNCWAKSLDLTGYAAAVVPLGGV
Ga0222713_1003200110F075864N/AMNPDPNLWIEIPQEVKDAALLLGNYFKKQNIDNWALYDVSSRKSVDNLENQVKNLETWKNKQVNGFID
Ga0222713_100320018F047570N/AMKMTNENKLKIVTLSHNIKALCYILDKKTFSEHCVTSGTFTEIDSLFELAKELKEMNKEE
Ga0222713_100320019F024743N/AMDVVTLSNLYSHASGAYNQAKDAQDLIIMMNVLHLRLEHNMAYQKIAKRCGIKVNKVKLILFNYESRS

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