NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Scaffold Ga0187803_10018320

Scaffold Ga0187803_10018320


Overview

Basic Information
Taxon OID3300017934 Open in IMG/M
Scaffold IDGa0187803_10018320 Open in IMG/M
Source Dataset NameWetland sediment microbial communities from Neuse River Estuary, North Carolina, USA - Control_3
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2793
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (75.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Wetlands → Sediment → Freshwater Sediment → Coastal Wetland Sediment Microbial Communities From The Mid-Atlantic And Southeast Atlantic Coast Of Usa, Responding To Salinity Intrusion.

Source Dataset Sampling Location
Location NameUSA: North Carolina
CoordinatesLat. (o)35.9061Long. (o)-76.1569Alt. (m)Depth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F037313Metagenome / Metatranscriptome168Y
F042445Metagenome / Metatranscriptome158Y
F060168Metagenome133Y

Sequences

Protein IDFamilyRBSSequence
Ga0187803_100183202F060168GAGGVKKAFYKSKAFYGCVSTIVLIVGDIVANGVTIGNMTALMTAGFALYGRIVATAPLAISDQSEADVEAAKADVRRSEKKVDADHGN
Ga0187803_100183204F042445GGGGGMTSSVSAVIAIGVALMAIAALSGCAQVHEKMFTLDCATGRAPLQGEMAPGTAMAIDVSTSPIPLISAPHRIIARCDNAGVVTMNIETPVDTGLSQLSTPLSTAASHMTYAP
Ga0187803_100183205F037313GAGGMSWKNRKSAGLFLCACVLMLAGCAQQGGGLLQPTPKQIISGKNTIVPSAAALSMEATNFCNAQAQVDYAGLVLYCEGKAPSLPLSISTTYQTETNQFSCQVYGYTNSSNQLIVPQTVTLGNCPTGVAPAPVTAPSGAAAAAK
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.