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 Ga0214544_1015852

Scaffold Ga0214544_1015852


Overview

Basic Information
Taxon OID3300021320 Open in IMG/M
Scaffold IDGa0214544_1015852 Open in IMG/M
Source Dataset NameRoot nodule microbial communities from cowpea collected in UCLA plant growth center, Los Angeles, California, USA - CNSS3
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)7612
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (41.67%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (42.86%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Corynebacteriales → Mycobacteriaceae → Mycobacterium → Mycobacterium tuberculosis complex → Mycobacterium tuberculosis(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Root Nodules → Root Nodule Microbial Communities Of Legume Samples Collected From Usa, Mexico And Botswana

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)34.06Long. (o)-118.44Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000029Metagenome5053Y
F000305Metagenome1333Y
F002932Metagenome519Y
F007068Metagenome358Y
F039014Metagenome164Y

Sequences

Protein IDFamilyRBSSequence
Ga0214544_101585210F000029GAGVEKLQLPATIHLDQGWITFNTWQCVKEVLCHIARMDSYRLLLGRAWLHFKTLHLDDRSLYLRHEGHQKKYKFMTPRQLTKDQHRLKEKTKKERIEKEVI
Ga0214544_10158523F002932N/AMHELFIVTYQGGPLLPRNVIDGLQPLECNKYQVEFDPGRRELVSTCEKIKVLHKIIINLH
Ga0214544_10158524F007068N/AMEVDYTRCLTEGHPCLVAFDYEIKNNVVSQRFVETLQLPTTFHLNQAWIKFSTWQCVKEVLCDIAPMDSCHLLFKTLLLDERSL
Ga0214544_10158525F000305AGGAVNETHQLSCFKRKLVHSTLFCIWFVDKKQIHQTQCMELFIITCQGGVRLPRNVIDGLQSLESNKYQDEFDPGGRELVSTCEKIKVLHKIIITLH
Ga0214544_10158526F039014GAGMDTYKKMEWKLIDITLSRMEDKPKSLNTQRDKGTLIKLKDS
Ga0214544_10158527F000305N/AVFSSTVCDVILQGQKDNHVNQTHQLPCLKRKLVHSALLCIWSVDKKQIRQTQCMKLFIVTYEGRVLLPTNVIDGLQPLESNKYKVEFDPGGRELVSTYEKIKVLPKIIINLH
Ga0214544_10158529F000305N/AVNETHKLPCLKRKLVHSALSCIWSVDKKQIRQTQCMELFIITYHGGVLLPRNVIDGMQPLESNKYEVKLDPGIRELVSTCEKIKVLHKIIINLH
 ⦗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.