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 Ga0129345_1017638

Scaffold Ga0129345_1017638


Overview

Basic Information
Taxon OID3300010297 Open in IMG/M
Scaffold IDGa0129345_1017638 Open in IMG/M
Source Dataset NameFreshwater to marine salinity gradient microbial communities from Chesapeake Bay, USA - CPBay_Sum_20_0.8_DNA
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2776
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (83.33%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Coastal → Unclassified → Freshwater To Marine Saline Gradient → Aqueous Microbial Communities From The Delaware River/Bay And Chesapeake Bay Under Freshwater To Marine Salinity Gradient To Study Organic Matter Cycling In A Time-Series

Source Dataset Sampling Location
Location NameUSA: Chesapeake Bay
CoordinatesLat. (o)37.1849Long. (o)-76.1104Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002858Metagenome / Metatranscriptome525Y
F030067Metagenome / Metatranscriptome186N
F030293Metagenome / Metatranscriptome186N
F103165Metagenome101N

Sequences

Protein IDFamilyRBSSequence
Ga0129345_101763810F002858AGGAGMSIDEKSIYVVDGGDYSIYCLGYTQARTVTNDIMRADPWGGIPFVLRKDLEFSLDDRGNVVMSRNTLDKILFLASDELPEGDD*
Ga0129345_10176383F103165N/AMCQITGKYFEDTLIAKTAVRVMDYPDEPSWGLYKTFDGLAVLCDCDVDHAKGELGDDT*
Ga0129345_10176384F030293AGGAGMILEMLDDRVSIEALGLIPHFFERALYIEGQPIQSVADKMDDLYYYGGFVHPFEGTIESDGRYITNNDFGEDDPLDPIARIDKLGFTLWIYPYAIVGLTDSKGNQKIGRFD*
Ga0129345_10176386F030067AGGAGGMPRESWEIAHDSYYDDLEADDYEGLDDSEAWKEEEQKVIDELIQRMKGSYNGNLH*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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