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 Ga0075428_100054049

Scaffold Ga0075428_100054049


Overview

Basic Information
Taxon OID3300006844 Open in IMG/M
Scaffold IDGa0075428_100054049 Open in IMG/M
Source Dataset NamePopulus root and rhizosphere microbial communities from Tennessee, USA - Rhizosphere MetaG P. deltoides SRZDD2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4400
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (66.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → Pseudolabrys taiwanensis(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Populus Rhizosphere → Populus Root And Rhizosphere Microbial Communities From Tennessee, Usa

Source Dataset Sampling Location
Location NameUSA: Tennessee
CoordinatesLat. (o)35.8443Long. (o)-83.9607Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F031559Metagenome / Metatranscriptome182Y
F036894Metagenome169Y
F065930Metagenome127Y

Sequences

Protein IDFamilyRBSSequence
Ga0075428_1000540496F036894N/AMVGPMGYNARNDEIRDNITRMRREWEVQRGALATVRRFNAMLSAKGYVWFWPKIAAALTSKHHWLIIACDSCGTVVDLDLRVKPRDPELQSA*
Ga0075428_1000540497F065930GGAGMRMPILSYFLVVGTVLFGGLVLVSTQLESKPLPVSQRIGVPPPFKAAPDDLPTPTWLERNQPF*
Ga0075428_1000540498F031559GGAGGMSDSFINRTSRVAIAGRVAERLRPQGWNELTLRGDYHTPFGKSEARTEAAKWLCIV*

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