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 Ga0209579_10000007

Scaffold Ga0209579_10000007


Overview

Basic Information
Taxon OID3300027869 Open in IMG/M
Scaffold IDGa0209579_10000007 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen03_05102014_R1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)762105
Total Scaffold Genes619 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)407 (65.75%)
Novel Protein Genes10 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (60.00%)
Associated Families10

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Surface Soil → Surface Soil Microbial Communities From Centralia Pennsylvania, Which Are Recovering From An Underground Coalmine Fire.

Source Dataset Sampling Location
Location NameUSA: Pennsylvania, Centralia
CoordinatesLat. (o)40.7999Long. (o)-76.3402Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000214Metagenome / Metatranscriptome1570Y
F000378Metagenome / Metatranscriptome1211Y
F000530Metagenome / Metatranscriptome1047Y
F000725Metagenome / Metatranscriptome918Y
F000949Metagenome / Metatranscriptome823Y
F001632Metagenome / Metatranscriptome660Y
F003947Metagenome / Metatranscriptome460Y
F026936Metagenome / Metatranscriptome196Y
F052903Metagenome / Metatranscriptome142Y
F064949Metagenome / Metatranscriptome128Y

Sequences

Protein IDFamilyRBSSequence
Ga0209579_10000007128F064949N/AMLLFESLSAGIMAVAVGFGAVLIVVGVYVIIVWPLTFWDLANLGLEKYSSLTNVVLWSVFAGGTMAGYWCFSGAAFKSKPKAQIPARPVRARR
Ga0209579_10000007171F026936GGAGGMADGLEKDWRELCAAVTKETDSAKLISLVRELIEALDKGERSWRRTIPPSDAIATNPESA
Ga0209579_10000007283F000530N/AMSDQVESAAPAVPVNENKVAERPFRVKLRGSVLVLVRLPNRRDVRAAIHQLSTTGGVIHFEKPLDEKIIVELIFHIGTSTIREKAQMLFPMWATQGWMQPFRFMDVSDAGRELLDTSLKSFLGEAKGAAAGK
Ga0209579_10000007309F000378GGAGGMEDRAPVVSSTEQSSTTAAIRHHEGRGAWVLTCYGICGLALFGVLAYFFSDFIAH
Ga0209579_10000007431F001632AGGAGMFLNSWKFILASTLLAIVPGLATNLFAADVKEQLAYCSYVMEQAQAQRDLLRTPVGALGMTQPETGLPLQVVAGASLGLADLRKSGLTMEAARRNCELYKATTGAQQDIQYAVPSLEREALRNRLALIEQASKALDSMMDTTAKMVEAQNATRLMLFSLQTTRIKLDADRADTQAKITALYVPELNEKPLKELVAEKQNNEVSEQKALDRLNRQNNWDVALSVGVHQQVNPVAQGAQPYGAVSVNYNFASRAINRHLDRAVDAYGEWKKAQEGDVVRNMEVLRQQLTDSVTAQEARLKSLQAEIGEIDKNLQVVGSPDTSAAFDFHNQLSAAELLLQIESGDTGFRIERLREFLAKNY
Ga0209579_10000007434F000949N/AMNRSSSDAPFYLLAALCGVGAGWADVAINDLLFTALLMVAACMMLGILRPRWPWRWVVTVGIFVPLTELAAYLVLTVKPTRAQIYGSFLAFLPGIAGAYGGSVMRGVIENLRQGK
Ga0209579_10000007441F000725N/AMSSLRDSREDASSMTRVLKTLRVVQWSMLASILLYAALGQALLGREGRAVDPAVSYLFSTLAVAIVGIIFVVRRTLVMRAAESLATHPDDGLSLNHWRTGYLATYALCEALALFGLVLRFLGCTFQQSALFYIGGFVLLFFFGPRQPVSAESAPGA
Ga0209579_10000007501F000214AGGMKNVYEVLRQKEMELTRLEKEVEALRLVAPLLSEEKEALSDMGKPALATAVNGPQPTTRIPMPSAPSIPAPQPVRAAGWEDTAKRWP
Ga0209579_10000007542F052903AGGAGGMGGHPLSDIPCKLCSKPVDLSIDLSADENGNAVHEECYVKHITSSRSKTNATVTPD
Ga0209579_1000000768F003947GGGGGLDFQINNETYFLSLAEDERRWLVFVESPTGSRTVPVYVDEAELEDVKLVVEDKERRKILN
 ⦗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.