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 Ga0224504_10030341

Scaffold Ga0224504_10030341


Overview

Basic Information
Taxon OID3300022308 Open in IMG/M
Scaffold IDGa0224504_10030341 Open in IMG/M
Source Dataset NameSediment microbial communities from San Francisco Bay, California, United States - SF_Oct11_sed_USGS_24
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2113
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Sediment → Unclassified → Sediment → Estuarine Microbial Communities From The San Francisco Bay-Delta (Sfbd), California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)37.7Long. (o)-122.34Alt. (m)Depth (m)11
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F076041Metagenome118N
F101256Metagenome / Metatranscriptome102N

Sequences

Protein IDFamilyRBSSequence
Ga0224504_100303411F076041GAGMAIALTLQPTADGLYSGYLPVKFTATEVTNSPAYLEFDLKTSAGASINGVPTYRATSIGGEYFFDASNYLKSILDVRSSQGLSTTAIEELTDSYGKFEVVVSDPINGLTDLTSSEFYAFANIDGLRYLNDETANDGINRKGLLYSSEISSGYYAPKFRGEYDRVILFPQMSGMLAPHINLATYNENRPNKNSTIIQNLRLDTSPYVDKLISVPLNNSFIVSNFSVFGGGFILSINSFKLTRAFSTNAMFYYKEDRCNIQEFVFVNKYGVKENIKFQSYDYERLRTKGDEFVAGGFNATGNTNFFNTSADTELINQDTVESYQIKG
Ga0224504_100303413F101256AGGALSKLGDFLKKQIKDKMEFHKRSASGESVNTLREELKGNHFYIYGVDYWDNINNGTKKGTLVDLKDIREWISNKGSRYGGTFPPASVIQRKIYAEGTSTPKEDLQIIDKVLKSNKAEIVRLTKDIVLKQLKIK
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