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 Ga0209253_10075708

Scaffold Ga0209253_10075708


Overview

Basic Information
Taxon OID3300027900 Open in IMG/M
Scaffold IDGa0209253_10075708 Open in IMG/M
Source Dataset NameFreshwater lake sediment microbial communities from the University of Notre Dame, USA, for methane emissions studies - BRP12 BR (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2773
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (85.71%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

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
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F007170Metagenome / Metatranscriptome356N
F009888Metagenome / Metatranscriptome311N
F056616Metagenome / Metatranscriptome137N

Sequences

Protein IDFamilyRBSSequence
Ga0209253_100757083F056616AGGAGMPFTKSFGLVGENCVVTIAFGGFQDGAPSAFTANTYTCLARSVRTSTSVDTADVSALCDTTKKMQVTKASGSIDIELLVDGTQQTDGSPVFFNKEGYYCQVVITPGALNAKTFVGIVTATGISISNGEAVTETATIMLGANGVATAWTSA
Ga0209253_100757084F007170AGGMAYEPAVIEQWVYETLSGDATLLGLLAPDNKPDGYQMGIYNTIAPQTDPVSRRPVQVPYVVFSRAGASGDDEDTLCGARVFTTPNYRITVWDTESGAMSMARIQTIMNRIDTLLDNQTVTTTTPRLYVRRTSTDQTFALSDGGRTDFGVTAVYRCLTQQ
Ga0209253_100757086F009888GAGGMAIIFDLTEDPQQVVQVSAWVGDWHSYVVRLVDELGSPVDITTGTLGATFTNIQTGASYSFGSGSVTLTKQYSAQGILSVLNPAAYATAADIRLTISFTVSTTVRRFGPLQIQVLAP
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