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 Ga0194029_1000388

Scaffold Ga0194029_1000388


Overview

Basic Information
Taxon OID3300019751 Open in IMG/M
Scaffold IDGa0194029_1000388 Open in IMG/M
Source Dataset NameFreshwater microbial communities from the Broadkill River, Lewes, Delaware, United States ? IW18Oct16_MG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5533
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)16 (94.12%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → River → Unclassified → Freshwater → Microbial Communities From Sediments And Microbial Mats In Various Locations

Source Dataset Sampling Location
Location NameUSA: Delaware
CoordinatesLat. (o)38.7906Long. (o)-75.1638Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002858Metagenome / Metatranscriptome525Y
F024320Metagenome / Metatranscriptome206Y
F026889Metagenome / Metatranscriptome196N
F056585Metagenome137N
F056586Metagenome137N

Sequences

Protein IDFamilyRBSSequence
Ga0194029_100038811F026889GGAGMNNVIQEYLALVERTVYQSDLDAFDALEQLEEQYPEIADLVYQSAGPLVYDIQNNEVI
Ga0194029_10003883F002858AGGAGMAIDEKSIYLVDGGDYQIYCFGYTQARTVTNDIMKRDPWGGIPFVYEQDQLEVSFDDRGNVVMPRAVLDKILFIASDELPEGEQ
Ga0194029_10003885F024320AGGAGGMTFEEYEQGYYSGDSEDPSGPPEDPETHAMVEHLVEFDTEMYRLDSRRKYKGLSYRHLESLMIDLHGEEWRDAL
Ga0194029_10003887F056585AGGAGMTRETWEFWADEYQEYYDDDTPVYPDDLEEWKKEEQKVIDELRQRLYGTLERETQE
Ga0194029_10003888F056586AGGAGGVKRTYQVIMTKVYEVKVEAESREQAEEIFDNFGDWEELLRVHTLDVEPADYLTLREED
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Institute for Fundamental Biomedical Research
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