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 Ga0150985_104513688

Scaffold Ga0150985_104513688


Overview

Basic Information
Taxon OID3300012212 Open in IMG/M
Scaffold IDGa0150985_104513688 Open in IMG/M
Source Dataset NameCombined assembly of Hopland grassland soil
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1715
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Unclassified → Unclassified → Avena Fatua Rhizosphere → Avena Fatua Rhizosphere Microbial Communities From Hopland, California, Usa

Source Dataset Sampling Location
Location NameHopland, California, USA
CoordinatesLat. (o)38.972988Long. (o)-123.116539Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002196Metagenome / Metatranscriptome584Y
F003251Metagenome / Metatranscriptome497Y
F016524Metagenome / Metatranscriptome246Y

Sequences

Protein IDFamilyRBSSequence
Ga0150985_1045136881F003251GGAGVKTKTYTTEKEAKKAAARAYRPAILRLPNGRYACFQAGDALPQGARAVSRWGTGRWRAYE
Ga0150985_1045136882F002196AGGAGMYRVAEDGRVLLEAAQEIHAERHGAQTFLPGTRLSFPEAAKRSGIRSDRQRYYDAIEDLDYEGAVEWDESARYARGTSNTSSPGAV*
Ga0150985_1045136883F016524GAGVKAEFHNPSGGVIKLGGVTHTREESGTAHTEVTEVVLTGNVPENAALGTYECRSVEGLTGERRWAPIFEDPAFNIRVVQRPFHAQRGGEFLGLEPA*
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