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 Ga0307409_100546536

Scaffold Ga0307409_100546536


Overview

Basic Information
Taxon OID3300031995 Open in IMG/M
Scaffold IDGa0307409_100546536 Open in IMG/M
Source Dataset NameMaize rhizosphere microbial communities from greenhouse at UC Davis, California, United States - 322HYB-O-2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1136
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Rubrobacterales → Rubrobacteraceae → unclassified Rubrobacteraceae → Rubrobacteraceae bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Rhizosphere → Maize Rhizosphere Microbial Communities From Greenhouse At Uc Davis, California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)38.5Long. (o)-121.7Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000972Metagenome817Y
F001016Metagenome805Y
F002864Metagenome / Metatranscriptome525Y

Sequences

Protein IDFamilyRBSSequence
Ga0307409_1005465361F001016AGGMGPQDPKDVTRDTARDLSGLAGELAALKADATHWLTDPEYATLRHRLEAAHAATEAALVEARRRARLNEKQGE
Ga0307409_1005465362F002864GGTGGMSEQDPVRIPREVLEELESVRRYTRAEVLDIPTVRHVAMERGKPALVVWIDEHEQEYGLGLLNGFRAED
Ga0307409_1005465364F000972N/AEDTVLEEAMDNLKEAGQRIRATQSLMRSEGMTDGENHRDLLTRLSTALAMTEAAYFEARRRRDL
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