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 Ga0209668_10139385

Scaffold Ga0209668_10139385


Overview

Basic Information
Taxon OID3300027899 Open in IMG/M
Scaffold IDGa0209668_10139385 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)1459
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

Taxonomy
Not Available(Source: )

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?
F039139Metagenome164N
F060908Metagenome / Metatranscriptome132Y
F078705Metagenome116N
F093847Metagenome106N

Sequences

Protein IDFamilyRBSSequence
Ga0209668_101393851F060908N/AKLDYTVSETVYIRSKNRIHIPKKYASYIGLKKGYVAHVTNLNGAYIITACPTPESKKFMVDKDGAVRFNVDKTNYKIMIADNTVVIV
Ga0209668_101393852F039139GGTGGMSMFLNAFEFTSEDIVTILRAHDTDITIQQLAEIHDILDHDSIIRSALQYNDADMQLKSALSQAEDLMIMDGLFITEPKRFHVDD
Ga0209668_101393853F093847AGAAGMVFLSQSQKDSTLTINLRKTFARIVYFIEQTNNGKSKETILKELELSEEEFQFLLNTMLSISKLKDNEATISSIQIKEEIFIGGTYVTAHNKDLISL
Ga0209668_101393854F078705N/AMYIAVDALANVDDSKLSYMILPFDEDLLEAIEENLKEIRIENEVIFPMQGTLLVRGEFHYVRKKVTMTEISNHRFCIAKNLEHIPKLDTPKLHVTNDYFYFSGYKVQGKKNEQQLVKFVSENFNIITIEKLRKYVKSKRDMVN
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