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 Ga0126307_10009227

Scaffold Ga0126307_10009227


Overview

Basic Information
Taxon OID3300009789 Open in IMG/M
Scaffold IDGa0126307_10009227 Open in IMG/M
Source Dataset NameSerpentine soil microbial communities from UC McLaughlin Reserve, CA, USA - Plot28
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)7109
Total Scaffold Genes13 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (100.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Serpentine Soil → Serpentine Soil Microbial Communities From Uc Mclaughlin Reserve, Ca, Usa

Source Dataset Sampling Location
Location NameUC McLaughlin Reserve (Lake County, CA)
CoordinatesLat. (o)38.8692Long. (o)-122.4283Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005142Metagenome410Y
F009947Metagenome310Y
F038573Metagenome165N
F040490Metagenome161Y
F057149Metagenome136Y

Sequences

Protein IDFamilyRBSSequence
Ga0126307_1000922712F038573AGGAGMDDKEGQIDEMGEAREAQYALECVLVRLTEAELQRVIDDLPPRARRHIRATTAHKIRHLGE*
Ga0126307_100092272F057149GGCGGVSVSGAHEQFCHLHDPDRSEERQRAARRAGKAKPSSREVRDLKEEIKNVIADVRAGDLDRNDAAVMIQGYRALKDCIALERQVRETDELAAEIEELKREYGAA*
Ga0126307_100092273F005142GGAGLAEILEAMTALAVDGTPALPKRVGPKGLLPSTWVDRTLRVAYVDCRGAGQETSGTLLALYPAGPVLNIGGAKTLLSWDRLVLCELAED*
Ga0126307_100092274F009947GAGGMASRDRAVGVEPWDTEWAAERAADALRFLGRNYPEFLENLRALDEAEEAAHEAAMDGDRGAYLDALRSHCRAGRDEALRIRRGAA*
Ga0126307_100092279F040490AGGAGGMDTRESSAPHAHPSTEDQDHPHACLNGYVYLGYTALDEETGEEVERVEALPCRRCASEASR*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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