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_1008906

Scaffold Ga0214544_1008906


Overview

Basic Information
Taxon OID3300021320 Open in IMG/M
Scaffold IDGa0214544_1008906 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)16269
Total Scaffold Genes21 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (61.90%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (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 → 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?
F042759Metagenome157Y
F053100Metagenome141Y

Sequences

Protein IDFamilyRBSSequence
Ga0214544_100890618F053100GAGVGYTSPLALSDKTCRSRVTCVGMLAEPARCDTPVPQPLSVMNSVKAKKVVTV
Ga0214544_10089062F053100GAGVWYTSPPALSDGSRRSRVIYVGCVGILAEPTRCGTLVPQPLSVANSVKAKKW
Ga0214544_10089065F042759AGGALEESNWPAKGGYGWAATDVRDQSSLNSWAYLHAFRILCQSLYLEPTPRRPTTWLSLISRPSISRLDAFSQSFKHFKDGYFKVVVKEGGKAYFLNADESAKFPFSWTNNPSRYKDMGMDELSTGDKEVVETLLKFVDKLPTKGLVTVYNLVHPIIDIEGICLLLKLC

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