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 Ga0209235_1000117

Scaffold Ga0209235_1000117


Overview

Basic Information
Taxon OID3300026296 Open in IMG/M
Scaffold IDGa0209235_1000117 Open in IMG/M
Source Dataset NameGrasslands soil microbial communities from the Angelo Coastal Reserve, California, USA - Sample 09_25_2013_1_20cm (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)35119
Total Scaffold Genes40 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)22 (55.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Archaea(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Grasslands → Grasslands Soil → Grasslands Soil Microbial Communities From The Angelo Coastal Reserve, California, Usa

Source Dataset Sampling Location
Location NameAngelo Coastal Reserve, California, USA
CoordinatesLat. (o)39.718176Long. (o)-123.652732Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F009132Metagenome / Metatranscriptome322N
F019981Metagenome / Metatranscriptome226N
F031428Metagenome182N
F036634Metagenome169N

Sequences

Protein IDFamilyRBSSequence
Ga0209235_100011720F009132GAGGMVKRKIVDSSPEDLSNLQRLVGPENVLAHCAGVNYQVYVTDTRLLVGKRFATGEKFMNVPTASINTLELITKSLLPPLTFAVLGAIASFLIWWFPGTRMLPLPVFPYDVAMLAGLVVFAGSLVVAWWRVGIAVLRIRINDSQNPITVKLVSTSKAEAVFKALKG
Ga0209235_100011722F031428N/AMGKMPERLVTGIVVMSAIRVGDSDLVKILRGVAVIVAAALMILPAYLNYEIWKAGFNPVVSMAISLQLFAIGIVLFILAVGKERLAPKSQPQ
Ga0209235_100011732F036634GGAGGVDKKDPLSVIRAELNSLALHVAKAGYNTEVKGKLREAAARLQKLAEQP
Ga0209235_100011740F019981AGTAGMQTNMNFPTYVFATVNPGRSTKVVDELKRNSQIDIIAPVTGRWDLVLRLKPNTPHNIYQTVKEIREISDVRTTDTHTGFDGMQPSKKLESQMALGFSLLNVQHTSVEN
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