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 Ga0184620_10039665

Scaffold Ga0184620_10039665


Overview

Basic Information
Taxon OID3300018051 Open in IMG/M
Scaffold IDGa0184620_10039665 Open in IMG/M
Source Dataset NameGroundwater sediment microbial communities from an aquifer in East River, Colorado, USA - PLM1_5_b1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1280
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Sediment → Unclassified → Unclassified → Groundwater Sediment → Soil And Sediment Microbial Communities From The East River, Co, Usa

Source Dataset Sampling Location
Location NameUSA: East River, Colorado
CoordinatesLat. (o)38.9195Long. (o)-106.9496Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000280Metagenome / Metatranscriptome1383Y
F002111Metagenome / Metatranscriptome592Y
F008327Metagenome / Metatranscriptome335Y
F077140Metagenome / Metatranscriptome117Y

Sequences

Protein IDFamilyRBSSequence
Ga0184620_100396651F000280AGAAGGMAQNQDDQPRPARPLVGYRDVGEDIRHGRSAITRAWIVLAILIVIYLAWTLTVY
Ga0184620_100396652F002111AGAAGMVVASVLPFVSYSSMTETLIPAAEWPTVYSSLQALKGHVQEYPGCQGFDVFVRAEGDGDVLVNCYTTWDTAGQLEVFLERGYTFERLLADIGSGLGPGRSLVMEKVF
Ga0184620_100396653F008327AGGAGMSMPKGDTPEKVNDFYLYLQGHQQTTHPVQTWHVDWMSLAWLWGFLSVLVVILFLWVRQYRTTRQRTGIYPVDSFGGWTTEGAGPATGFFLLFTAIIVGFAVALIVGHIVWGQKF
Ga0184620_100396655F077140N/AGKTPLSLEDAAAGIKAIYQNLLDRAWAEAKARGDKLPPSGQKDIPPTVPGQQ
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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