NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Scaffold Ga0184619_10008902

Scaffold Ga0184619_10008902


Overview

Basic Information
Taxon OID3300018061 Open in IMG/M
Scaffold IDGa0184619_10008902 Open in IMG/M
Source Dataset NameGroundwater sediment microbial communities from an aquifer in East River, Colorado, USA - PLM0_60_b1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3890
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (71.43%)
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
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000280Metagenome / Metatranscriptome1383Y
F000805Metagenome / Metatranscriptome883Y
F001079Metagenome / Metatranscriptome785Y
F063497Metagenome / Metatranscriptome129Y

Sequences

Protein IDFamilyRBSSequence
Ga0184619_100089021F063497N/AIVLSGIVQIVNVGMTIFTDTSERRRRETRLVAEAIAPPMPT
Ga0184619_100089024F000805AGGAGGMGIPSGDYDSPTKVQQYYHYLQGHQETMQAPAAWHVRWLDLAWLWGFLIVLAFVTLLWVWQYRSTRQKAGLYPVDEFGGYTSELAGPASFFFLILSLILTGFAVVLIVGHLVWGQKF
Ga0184619_100089025F001079AGAAGMAVAVTDTPSALPYVSWSSLTVAVIPMSDWPLVFGSMQALKGHVQEYPGCQKLEAFVHTDAEGGIRIHCYTTWDTPEQLEAFLERGYTFERMLVDVGGITAEPTLVMEKIF
Ga0184619_100089026F000280GGAGMAEREPERRPSAARPLVGYRDVGEDVRHSRGSEYRAWIILAAIMLLYLGWTLIVYFLEPGLR
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.