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 Ga0224513_10113818

Scaffold Ga0224513_10113818


Overview

Basic Information
Taxon OID3300022220 Open in IMG/M
Scaffold IDGa0224513_10113818 Open in IMG/M
Source Dataset NameSediment microbial communities from San Francisco Bay, California, United States - SF_May12_sed_USGS_21
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1038
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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)37.79Long. (o)-122.36Alt. (m)Depth (m)17
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F023856Metagenome / Metatranscriptome208Y
F056585Metagenome137N
F071124Metagenome / Metatranscriptome122N

Sequences

Protein IDFamilyRBSSequence
Ga0224513_101138183F023856GAGGMRCRACDKILEDSELTRKDTHGNFLDLCGSCLSASASAGVDPDTMNYYQYEVFTDEDKCDTLY
Ga0224513_101138184F071124AGGMTYAEYELGYYMGDSEDDSGPLEDPETQAMLEHLIEYETEMYRLKCKRRLSGCTYKQLKGLLINLHGEDWKNAL
Ga0224513_101138185F056585GGAGMNRETWEMWADEYQEYYEDETPVYPDDMEEFKKEEQKVIDEVIRAIQGLSA
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