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 Ga0099793_10001755

Scaffold Ga0099793_10001755


Overview

Basic Information
Taxon OID3300007258 Open in IMG/M
Scaffold IDGa0099793_10001755 Open in IMG/M
Source Dataset NameVadose zone soil and rhizosphere microbial communities from the Eel River Critical Zone Observatory, Northern California to study diel carbon cycling - Rivendell_Oct2014_Saprolite_2_DNA_Bulk_3
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)7014
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (70.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Vadose Zone Soil → Vadose Zone Soil And Rhizosphere Microbial Communities From The Eel River Critical Zone Observatory, Northern California To Study Diel Carbon Cycling

Source Dataset Sampling Location
Location NameEel River Critical Zone Observatory, California, USA
CoordinatesLat. (o)39.7291Long. (o)-123.6419Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F025704Metagenome / Metatranscriptome200N
F029702Metagenome / Metatranscriptome187N
F058901Metagenome134N

Sequences

Protein IDFamilyRBSSequence
Ga0099793_100017552F058901GAGMISTRAEFGVTMKRPNWKAIGFLAFIAVGAVSAALGCPFFRNPENYMSAGGLVGYVQHLVSVHRKT*
Ga0099793_100017557F025704GGAVSDRLIEPDASGGDMGFLQELAGRVEEVAAAGGKFADAFVRTAGATFSSALVFMEREIGYAQKAAKKRGGEKAGSRKGPNRK*
Ga0099793_100017558F029702GGAMKAHSIYVEQRTIYKCSCDREFGDIQKAELHLRNPPNEKVKTLRPKKHAPRRREAKTVMAAAADMPEPTGRRAWLSPNPEGDESQDGS*
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