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 Ga0209693_10004606

Scaffold Ga0209693_10004606


Overview

Basic Information
Taxon OID3300027855 Open in IMG/M
Scaffold IDGa0209693_10004606 Open in IMG/M
Source Dataset NameWarmed soil microbial communities from the Hubbard Brook experimental Forest, New Hampshire - Hubbard Brook CCASE Soil Metagenome WRM 3 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6301
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (36.36%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Forest Soil → Soil → Soil Microbial Communities From The Hubbard Brook Experimental Forest, New Hampshire, Under Manipulated Climate Change Conditions.

Source Dataset Sampling Location
Location NameUSA: New Hampshire, Hubbard Brook experimental Forest
CoordinatesLat. (o)Long. (o)Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003278Metagenome / Metatranscriptome496Y
F004875Metagenome / Metatranscriptome420Y
F015675Metagenome / Metatranscriptome253Y

Sequences

Protein IDFamilyRBSSequence
Ga0209693_1000460610F003278AGCAGGMLKISLIDSVRQRRLIVEGKLIAPWAAELRSACEEARVDLHSRELVIEMKHITTISQEGENVIVELINEGNKFRCRGVFTKHVLKELTRRANRDLRETKR
Ga0209693_100046064F004875GGAGVSVVLLLSGLGLAQQVVTARATIPFNFWAQGHEFQAGDYVFDNEIPGSAKIHREGTSSGIEVSIILYAVPQEKETPRVIFVLRDGKYFLFELWSVQGQYVVTADFGHRGHSANT
Ga0209693_100046067F015675GAGMLANHEPDRNIEDLTDAEIYAAIRYLEPAETSTDEQNDSNGVVICVCLYIALLGCLAFVWLYWR
 ⦗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.