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 Ga0228711_1025372

Scaffold Ga0228711_1025372


Overview

Basic Information
Taxon OID3300022739 Open in IMG/M
Scaffold IDGa0228711_1025372 Open in IMG/M
Source Dataset NameRoot nodule microbial communities from Medicago polymorpha collected in Santa Monica, California, United States - brown nodules
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4001
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → eudicotyledons → Gunneridae → Pentapetalae → rosids → fabids → Fabales → Fabaceae → Papilionoideae → 50 kb inversion clade → NPAAA clade → Hologalegina → IRL clade → Trifolieae → Medicago → Medicago truncatula(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Roots → Nodule → 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)34.0136Long. (o)-118.4673Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002299Metagenome573Y
F003802Metagenome467Y

Sequences

Protein IDFamilyRBSSequence
Ga0228711_10253721F003802AGGMAARKKCDLVLNWTLRLPWVFQFIGSEVYNIVDKTFPHPLLLKEGYVWFRGQSLLLHRISGSRLRPILDRSGGSAQAGRLMLLLVYDYF
Ga0228711_10253722F002299GGAVTEKAPKSDEQSRSNLALGDRLAVSLATAKRLPSAKDSLLSPDARTSKAFSDGHMLLSIDSYGISKTPRSNNPSLDVSF
Ga0228711_10253723F002299AGGVTSSCGRSLALGDRLAVSLATAKRLPSTKDSLLSRDARTSKAFSDGHMLLNIDSYGISKTPR
Ga0228711_10253724F002299GGAVSEKAPRSDEQSRSNLALGDRLAVSLATAKRLPSAKDSLLSPDARTSKAFSYGHMLLSIDSYGISKTPRSNNPSLDVSF

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