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_1005617

Scaffold Ga0214544_1005617


Overview

Basic Information
Taxon OID3300021320 Open in IMG/M
Scaffold IDGa0214544_1005617 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)24072
Total Scaffold Genes39 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)22 (56.41%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
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 → 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?
F005662Metagenome393Y
F046863Metagenome150Y
F046864Metagenome150Y
F089948Metagenome108Y

Sequences

Protein IDFamilyRBSSequence
Ga0214544_100561725F005662AGGMCLVVGHMMGMKLVEFLSTTNGRGVLSMVIACVGHTMGKELLCSHRLLLSEESIVW
Ga0214544_100561733F005662AGGMCFVVGHMMGMELVEFPSATNGRGVLSMVIVCVGCTMGKELLCSHRLLLGEESIVW
Ga0214544_100561735F046864N/AVVGRVAAGVGAALEASLAFPFRVGSASIFRLRREFSCRSASISSALRFFRSINSCCIFAWPTRMAARSGVMSAGPKGPASAYLFTPALLRVETIFREKWVLKVFVSCATVAANSSCREQI
Ga0214544_100561736F046863AGGMSDVDFEVFVRVGFASIAVQGERFPLGRKRGVGDKVGEGVMASGLMGREQVGWDGLSDHSGEGGGKVVRGDVACWEVLRVVRWNLCGV
Ga0214544_100561738F089948N/AMSALGGVVVLRGGGIRSACRASSRMRERATVREAYLVKRGWRGSRGRASGRGGCGVGLAVVAA

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