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 Ga0209668_10031306

Scaffold Ga0209668_10031306


Overview

Basic Information
Taxon OID3300027899 Open in IMG/M
Scaffold IDGa0209668_10031306 Open in IMG/M
Source Dataset NameFreshwater lake sediment microbial communities from the University of Notre Dame, USA, for methane emissions studies - PLP11 PL (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2730
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 → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Sediment → Freshwater Lake Sediment → Freshwater Lake Sediment Microbial Communities From The University Of Notre Dame, Usa, Of Lakes That Contribute To Methane Emissions

Source Dataset Sampling Location
Location NameUniversity of Notre Dame, Indiana, USA
CoordinatesLat. (o)41.7Long. (o)-86.23Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002260Metagenome / Metatranscriptome577Y
F003807Metagenome467Y
F041183Metagenome / Metatranscriptome160Y
F058142Metagenome / Metatranscriptome135Y
F058146Metagenome135Y

Sequences

Protein IDFamilyRBSSequence
Ga0209668_100313061F058146AGGMKLSQLTAKPTLIEMILDDADIIKEFGEPITFHTWDRQPLDTFMKLAAADHSNAGSVLEIVKTLILDEKGKEILKDEQMLPTHVLMKAIAKVTELLGK
Ga0209668_100313062F003807AGGAMNNDNIWYKTNEEKIRSLIADEAKTIPMLNNMEATIKQLKAKQTFRLALLNQLLEDSYKK
Ga0209668_100313064F058142AGGAGMAEITYSVLNEPYVTQTEIYNVLKRDILPRWNIPIYTDFPSEVDVVRYGVYISDVHLDERNPHQLGIQYCGSIYHAYDTFSVTYVSYQDDPYNNAVNAIIGNLVTALKDNGEQLMDGYFERDFNQVRTYGPTQAEKHTWTFRLLRMEFNT
Ga0209668_100313065F002260AGGAMSVPYQRISNATVADINFYDPAAERRAEALNVNWEPYFKVASQEWLYKMEFGWWQNYCDTVIGAYYYNNLPNGQLISSFNPSLLIKNDQTLIRLDTFGAILVFYESLVTDVSNMNEVDKQNYEFAKMRCDDEWRKAQELSNWYDLFQDSPNGPTTKLEENWTADPNYFNGDRRYF
Ga0209668_100313066F041183N/ANFKATPSNTYYATSADGFDRVSALGAMELAESGSNVSVGAGGTEGFSAASVLDLVRLVKQNFKVARMPGTPVIVLDSNGAAEGSVAGQTGSSLNRLLAELTGGAVSQSGGSNLSALGNELLQTGRIESVYGCMIIFTTFLQSASRTFLGSGPFSVLVGAYFGDSAIFTVMKEGLQLKTGETPGGLQMWLTGVGYFGSGVGDGRRGGAINIQQ

 ⦗Top⦘



© 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.