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 Ga0129333_10016068

Scaffold Ga0129333_10016068


Overview

Basic Information
Taxon OID3300010354 Open in IMG/M
Scaffold IDGa0129333_10016068 Open in IMG/M
Source Dataset NameFreshwater to marine salinity gradient microbial communities from Chesapeake Bay, USA - CPBay_Sum_0.6_0.8_DNA
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)7114
Total Scaffold Genes19 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (47.37%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families5

Taxonomy
Not Available(Source: )

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)39.2637Long. (o)-76.0017Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001968Metagenome / Metatranscriptome610Y
F004314Metagenome / Metatranscriptome444Y
F005727Metagenome / Metatranscriptome392Y
F021760Metagenome / Metatranscriptome217Y
F064683Metagenome / Metatranscriptome128Y

Sequences

Protein IDFamilyRBSSequence
Ga0129333_100160681F004314N/AMYDDYDLDYTYSNDYGQDLEEYTQDLDEDYARDTHDLEALAYRHYA*
Ga0129333_1001606810F001968GAGGMFDELWSEIQDAPGEIFDMDIPELRDDEKFNVNEYLNANYDY*
Ga0129333_1001606814F005727N/AMQFLTRSRSPEFHRATMLRLLVTALLLWGFWEPLRPIRSVTAQALDTAADLIAH*
Ga0129333_1001606817F064683N/AMTADLAAALLNRAANGTQLLQVLDSITDSVEQENAAPSAPTAEPIQF*
Ga0129333_100160686F021760GAGMCGPVFEYTFEDFLNDASPEEWAEWESKAAELELPLDYYIQEFV*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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