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 Ga0126313_10024218

Scaffold Ga0126313_10024218


Overview

Basic Information
Taxon OID3300009840 Open in IMG/M
Scaffold IDGa0126313_10024218 Open in IMG/M
Source Dataset NameSerpentine soil microbial communities from UC McLaughlin Reserve, CA, USA - Plot105A
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4081
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (87.50%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

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)38.8722Long. (o)-122.4269Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F010123Metagenome / Metatranscriptome308Y
F079181Metagenome116Y

Sequences

Protein IDFamilyRBSSequence
Ga0126313_100242183F079181GAGVAVLLAITKEHRICVDAFKEGHYFLPGVPDGPRIPDGYGEAGGLPNTHYHGRAADIWWVDGKPVEGNATAPSVLGVGRALAEIPARRRPDQIIGPSRWTEVLGYGREAGWVLDPDQLELHADHIHVGFMTKKGTRNVR*
Ga0126313_100242186F010123AGGGGGMIRISVEVCSGGARFRMVVQAESIEQALEIARRHHPGKECQVTFPLDPETFFADPVARVEATEAA*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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