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_10012177

Scaffold Ga0222717_10012177


Overview

Basic Information
Taxon OID3300021957 Open in IMG/M
Scaffold IDGa0222717_10012177 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)5941
Total Scaffold Genes19 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)17 (89.47%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

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

FamilyCategoryNumber of Sequences3D Structure?
F001655Metagenome / Metatranscriptome656Y
F002858Metagenome / Metatranscriptome525Y
F023856Metagenome / Metatranscriptome208Y
F030067Metagenome / Metatranscriptome186N
F071124Metagenome / Metatranscriptome122N

Sequences

Protein IDFamilyRBSSequence
Ga0222717_100121772F001655GAGGMKQPENSHAKHFGNDGPIGNDAEIIVYYEQHGPAEPVLRIPFWYYKEELGMFEHFEASVHRTAKALKESYTYWPEGYVHVQTLINDEYVNMI
Ga0222717_100121774F002858AGGAGGMSIDEKSIYVVDGGDYSIYCLGYTQARAVTNDIMRLDPWGGIPFVLRKDLELSIDDRGNVVMSKSTLDKILFLASDELPEVDQ
Ga0222717_100121776F023856GGAGGMRCRACDKILEDSELTRKDTHGNFLDLCGNCLSASANSGVDPDTMNYYQYEVFTDEDKCDTLY
Ga0222717_100121777F071124AGGGGGMTYAEYELGYYMGDSEDYSGPPDDPETRAMLEHLIEYETEMFKLECRRRYSGCTYRQLRSLLINLHGEDWKNAL
Ga0222717_100121778F030067AGGAGMPRESWEIAHDEYYDDLEAPEQYARCDIEAWKEEEQKVIDNVIQRLQGVTQ
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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