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 Ga0184642_1269086

Scaffold Ga0184642_1269086


Overview

Basic Information
Taxon OID3300019279 Open in IMG/M
Scaffold IDGa0184642_1269086 Open in IMG/M
Source Dataset NameMetatranscriptome of groundwater sediment microbial communities from an aquifer in East River, Colorado, USA - PLM0_30 (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1770
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Sediment → 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
F000805Metagenome / Metatranscriptome883Y
F001079Metagenome / Metatranscriptome785Y
F001935Metagenome / Metatranscriptome615Y
F019193Metagenome / Metatranscriptome231Y

Sequences

Protein IDFamilyRBSSequence
Ga0184642_12690861F001935AGGGGGVYIKHVTSLQFLTYVSFFAVLLAAMFRFVPGRSPPVREEPYPEDELHAHDRKVAKYFVAGGLFLVLGSVHMVLKNLPWVADYLARTGYAGHLVRDLSNTHVMIVGGGTLLATGLCWFALP
Ga0184642_12690862F000280GGAGMADEPSQRPARPLVGYRDVGEDVRHSRGSVIRAWVILAAIALIYLGWTLTVYFLEPGLR
Ga0184642_12690863F001079AGAAGMEATLSTSLVLPYVAWSSASMAVVPAAEWPLVFGSMQALKGHVQEYPGCQKLEAFVEPEGADYRLHCYTTWDTPEQLEAYLARGYTFERMLADVASLTAEPPRLMEKIF
Ga0184642_12690864F000805AGGAGGMGMPSGDSPEDVRQYYDYLQGHQETMQRAATWHVHWLDLAWLWGFLIALALATLLWVWQYRSTRQKKALYPVDSFGGYTTELAGPATFFFVALTVVLTGWAIAIIVGHLVWGQKF
Ga0184642_12690866F019193N/AFDKKLATDPYVQEAMRILPGLAPGDSMMLNDGKTELSLQTAAAGIKSMYEDMLNRAWQDAQARGEKLPLEVQRAIPPEVPGQQ
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