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 Ga0222718_10021092

Scaffold Ga0222718_10021092


Overview

Basic Information
Taxon OID3300021958 Open in IMG/M
Scaffold IDGa0222718_10021092 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_27D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4528
Total Scaffold Genes14 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)12 (85.71%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (100.00%)
Associated Families6

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

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)37.6183Long. (o)-122.2916Alt. (m)Depth (m)12
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003976Metagenome / Metatranscriptome459Y
F010532Metagenome302N
F010878Metagenome / Metatranscriptome298Y
F021404Metagenome219Y
F022084Metagenome216Y
F059441Metagenome134N

Sequences

Protein IDFamilyRBSSequence
Ga0222718_100210921F010532GGAMNRTLYKKLEDICAREYILNKLSSSKFRTFVDFLYDDIRTWDEPMKVSEVDIIHRIEEHMSYMVSSYLTKSYEGIGMDEQALRQA
Ga0222718_1002109211F022084GAGGMTHQKYLKELFKLIEGKGYTIECECEGEEITKDEALTQVDETVIYVIDKDGHCLGWIYFLFWNDWDESISDYTLDLDKILNLDDFINRYTYMVN
Ga0222718_1002109212F021404GAGGMTYKINDKINYFFKGDEDNEPCEDVMIVKALKDLDNGEVFKLKPTSNNNNVLIKGDYDKSTNKYWATKWHDIKCSTLKDGNTLVFTGFIF
Ga0222718_100210923F010878AGGAGGMKVKAWHIGIVWEDDTEEAISDIPNWVATRVDEFLDELEEEYNE
Ga0222718_100210924F003976GGAGGMSRLYNDYYFEKQDILDTLEKLDMSVRFLNVWVNEPMGFENARYVLEKNANQEFNWFSRDMVKELVEEETYES
Ga0222718_100210925F059441GGAGGMKTWSSTITYSVFDMGRECETEEEYIEWVKETFREDHNIELRDDEITNIQREELYYE
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Institute for Fundamental Biomedical Research
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