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 Ga0210396_10000050

Scaffold Ga0210396_10000050


Overview

Basic Information
Taxon OID3300021180 Open in IMG/M
Scaffold IDGa0210396_10000050 Open in IMG/M
Source Dataset NameForest soil microbial communities from Barre Woods Harvard Forest LTER site, Petersham, Massachusetts, United States - Inc-BW-H-17-O
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)245619
Total Scaffold Genes241 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)186 (77.18%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (85.71%)
Associated Families7

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Forest Soil → Soil → Forest Soil Microbial Communities From Barre Woods Harvard Forest Lter Site, Petersham, Massachusetts, United States

Source Dataset Sampling Location
Location NameUSA: Massachusetts
CoordinatesLat. (o)42.481016Long. (o)-72.178343Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000522Metagenome / Metatranscriptome1055Y
F001567Metagenome / Metatranscriptome670Y
F003400Metagenome / Metatranscriptome489Y
F005961Metagenome / Metatranscriptome385Y
F006188Metagenome / Metatranscriptome379Y
F052075Metagenome / Metatranscriptome143Y
F054324Metagenome / Metatranscriptome140Y

Sequences

Protein IDFamilyRBSSequence
Ga0210396_10000050114F001567GGAGVPTLLGGEEAKGAYDRLAAAKFRQHTCEAGTGFSATAPEAKRNIDTAFIERARTLIKRGYKPKVAVELVLQETEIEHGNDPKFMEKARADAEDFLQRVRTGLI
Ga0210396_10000050175F000522AGAAGGMDHNEAVRKFEHLMLRGADQAHEAATELEALVSLLPNEKSRQLAQLQAKASHKQAKDFRELAQKVKES
Ga0210396_10000050197F054324GGAGGMCPVHWDHTGHARSTRYVRQDWEKLYRAALLEFDRSRLLQRIEKAEAAILSRSRRLAKPPSNHGREQDAIARAQHILSLLRQAGQKQ
Ga0210396_10000050202F005961GGAGMKILLFAGLLVVMLGIASLIVPVPQTETHGIKAGDVNIGVQTSHSERVSPMVSVVLIAGGIALTIAGARSGTSRS
Ga0210396_1000005077F006188AGGCGGLGAAVIPTKVVEVIASEMALGVDRAVECWMSQIEQALTDTHLTSLGRLNAVREILDEYKYLTGKVQLQGRGSSALLE
Ga0210396_1000005078F052075AGGGGGMDVDLLYSYLIDSTWFFLGSWVVALLTAGALAFADWSLPRIAPLMGTMRRN
Ga0210396_100000509F003400N/AMEFLLAPFSVNYSVEFFRCTDKFCQRCFSESLGYVTPKRDEPPIVSSDQPVCDKHGRPMFISSLDRQRNVLRYVCPEPGCRETALKG
 ⦗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.