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_1003536

Scaffold Ga0214544_1003536


Overview

Basic Information
Taxon OID3300021320 Open in IMG/M
Scaffold IDGa0214544_1003536 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)32188
Total Scaffold Genes31 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)19 (61.29%)
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?
F007299Metagenome353Y
F046862Metagenome150Y
F046863Metagenome150Y
F055472Metagenome138Y
F079668Metagenome115Y

Sequences

Protein IDFamilyRBSSequence
Ga0214544_100353610F079668AGTAGGMDSMWDATRGSTPGRSVANQAKRSVLLMRMGVMMTRSSEFKLVPKLMKWPLGGSRGEVSSTSSRRTSRPTLGSKSSPDRAMSEPGGRSMWLVC
Ga0214544_100353611F046862N/ALWAQAGHVAFACQTLVVVDGEDVTGRRRELHGQVGGGDNSAKGVEGRTAQEDIVGCWRVDDKEADWNGFGLGSLTKHGVKVDVAAGGYLFAKKAKDWFVIRDHSSVRESEFLVGGPVEVVNRAALVNKDFLNGVVFDFNGDDHGVILLMVEAIKVVICEDDGRHTASVVGMSDMIDGLDMAEVFLSGRRGGSSTSKATKDGVDSAS
Ga0214544_100353612F055472GGAGGVVGSRGVAGARGMIISMDEAAKVTNTDQFFYLILECFAVFCSVAMVAVVATILGHISIRRCGCLAW
Ga0214544_100353614F046863AGGMGDVYFEVFIRVDFAGVAVQREGFLLRRKGGVGDKVGEGVATSGLVGREQMRWDGMVEHNREGGGKVVRGDVGCWKVMWIVGWYMCSV
Ga0214544_10035362F007299AGGMAQSGKKNLALFQSLRKEMAAKAKEAGKTDVPNLQESMVEVHVHGGTKRKAEFPPRPGKGKDVKKVRAALLGAGSASGAGSASGVKGPESGLIELPKISVRKDIAMNLPDTIINSIDGMKADHIVRTMVEFGSKALILSRCVRSLYRQEVKEEGRERVEEL
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