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 Ga0065707_10227578

Scaffold Ga0065707_10227578


Overview

Basic Information
Taxon OID3300005295 Open in IMG/M
Scaffold IDGa0065707_10227578 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere bacterial communities from Rose Lake, Michigan, USA - RL3
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusDraft

Scaffold Components
Scaffold Length (bps)1201
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria → unclassified Candidatus Rokubacteria → Candidatus Rokubacteria bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Switchgrass Rhizosphere → Switchgrass Rhizosphere Microbial Communities From Michigan, Usa

Source Dataset Sampling Location
Location NameEast Lansing, MI
CoordinatesLat. (o)42.794771Long. (o)-84.393804Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F020982Metagenome / Metatranscriptome221N
F041239Metagenome / Metatranscriptome160N
F073806Metagenome / Metatranscriptome120Y

Sequences

Protein IDFamilyRBSSequence
Ga0065707_102275781F073806N/AMTYTTEDFVRHSLPRILHSAKYRNTFLCLPCLVTMTLERLHPGWRSSEIARALDKVYAAPGVPMESRAAVRCAACRNVKPGLGSPYL*
Ga0065707_102275782F020982AGGGGGMGGRNRVMARRHFMGNRTYKGLTYTLELEAVEESVFKAHARLSPSGPEVSIVDETSDSALKQAEAGIRQVIEQREAGTVVRERLPERMYGDVKYTIIVRTEATRVVAELYFIRANAQPRRPGPGTFFALFEGKTKQGAIGQAERGLKAKLDKERNGTTAGRSSR*
Ga0065707_102275783F041239AGGAGMVRRRGALADSMSATGLGLSALWEERDYKACGGSMECRGRFILGKLFDRDTRMLKAAWLVAFGTRVLGPPEIRTDEITKSQWQVILSHMG
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