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 Ga0214544_1002128

Scaffold Ga0214544_1002128


Overview

Basic Information
Taxon OID3300021320 Open in IMG/M
Scaffold IDGa0214544_1002128 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)41760
Total Scaffold Genes50 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)25 (50.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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 → indigoferoid/millettioid clade → Phaseoleae → Vigna(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
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005662Metagenome393Y
F044322Metagenome154Y
F053100Metagenome141Y
F067457Metagenome125Y

Sequences

Protein IDFamilyRBSSequence
Ga0214544_100212814F044322N/AMPSILILIPSCDNKHTINVIVYIGFDVYAKFQRKEREECQGMYLEEDNVPILEAGRMKKKDKTRCVT
Ga0214544_100212833F005662AGGMCLVVGHMMGMELVEFPSATNGRGVLSMVIACVGRTMGKELLCSRRLLLGEESIV
Ga0214544_100212834F067457AGGAMFPSATIGRGVHSMMIACVPGSKCETWMFYYRRESVGQDYERDRLIGLDHK
Ga0214544_10021287F053100GAGVWYISPPTLADMSCRSRVICVGMLAEPARCDTPVPQPLSVMNSVKAEKW

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