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_1003363

Scaffold Ga0214544_1003363


Overview

Basic Information
Taxon OID3300021320 Open in IMG/M
Scaffold IDGa0214544_1003363 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)33102
Total Scaffold Genes40 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)19 (47.50%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
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
F042759Metagenome157Y
F062491Metagenome130Y
F067457Metagenome125Y
F079668Metagenome115Y

Sequences

Protein IDFamilyRBSSequence
Ga0214544_100336322F062491GAGLIYKDFLNSIIFDFNGDDHGVILLVVEAVEVVICEYDGEHTTSVVGMSEMVDGLYMAEVSLSGRRGGASTCEATRDGVNGAS
Ga0214544_100336324F079668GGAMPPRGSTPGRSAADQAKRFVLLMRMGVIVARSSEFKPVPKLMEWPLGSSKGVVSSTGSRRTSRPILGSRSSPDRAMRELGGCSIWLVCWIGSCGRKLAI
Ga0214544_100336332F007299AGGMAQSGKKNLTLFQSLRKEMAAKAKAAGKADVPNLQESVVEVHVHGGTKRKAKLPPRPGKGKDVKKIRAALLGTASGAGSASGEKVPEAGLIELPKISVRKDISIDLPDTVVNSIDNIEVDHIVRTMVEFRSKALVLSRRVVRWISWRRRRRL
Ga0214544_100336333F042759AGGLQAFRILCQSLYLEPTPYAFLYFYDTRPRRPVTWLSLISRPSISRLDAFSQSFKHFKDGYFKVVVKEGGKSHFLNADGSTKFPFSWTNNPSRYKDMGVEELSAGDKEVVGMLLKFVDKLPTKGLVRVYNSVHPIIDIEGICLLLKLC
Ga0214544_100336339F067457AGGVLGGWTHDEHGTVLFPSATIGRGVHSMVIACVPGSKLRRLGCFTTEEESVEQDYEWDRLIGLDHE
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