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_1013405

Scaffold Ga0214544_1013405


Overview

Basic Information
Taxon OID3300021320 Open in IMG/M
Scaffold IDGa0214544_1013405 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)9944
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)12 (66.67%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

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 → Vigna unguiculata(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?
F044323Metagenome154Y
F046863Metagenome150Y
F046864Metagenome150Y
F053100Metagenome141Y
F079668Metagenome115Y

Sequences

Protein IDFamilyRBSSequence
Ga0214544_10134051F053100GAGVWYTSPPALSDMSYWSRVICVGILAEPARCDTPVPQPLSVMNNVKAKKW
Ga0214544_101340510F079668N/AMDSLWDATKGSTPGRSAADQAKRSVLLMRMGVMMAHSSEFKPVPRLIERPLGSSKGEVSSTGSRRTSRPTLGSRSSPDSAMPEPGGRSMWLVC
Ga0214544_101340512F044323GGALGSLTKDGVEVDVAAGGNLFAREAIYWFIIEDHSGVQKLDFLVGGLVEEVNRAALVHKDIFNGVVFDFNRDDHGVILLMVEIMKVVICEDDGRHAAPVVGMDDMVDGLDMTKVFLSGRRGGFSTSEATRDGVDGAT
Ga0214544_101340517F046863AGGMGDVDFEVLIRVGFASIAVQGEGFPLGRKRGVGDEVGEGVATSGLVGREQMRWDEMVDHSGEGGGKVVRRDVGCWKVLWVVWWTMCGV
Ga0214544_101340518F046864AGGVGLYSLSSSVGWKAGNLAALEASLAFPFRLGSTSIFRLRREFSCRSAPISSTLRFFRSATSCCIFAWPFRMTARSGVMPAGPEGPASACLFTPALLRVETIFREKRVLKVFVSCPTVGANCSCRKQIR

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