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_10000201

Scaffold Ga0209668_10000201


Overview

Basic Information
Taxon OID3300027899 Open in IMG/M
Scaffold IDGa0209668_10000201 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)25375
Total Scaffold Genes40 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (22.50%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families3

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?
F019105Metagenome231Y
F025467Metagenome201Y
F032249Metagenome / Metatranscriptome180Y

Sequences

Protein IDFamilyRBSSequence
Ga0209668_100002011F032249N/ALYINSMKKIDMGKFVLLIGKDATEIFDYYNVDQMHGLNRKDAQAEEVDKTKGNGVYIYGWTNYDPRDKKLKAKAPYKPFLFLNKKHFKGDFTDITLVNHEAMHIAILLNNWKIVDKEEDAITQAEEYTNKIVRLLKLDKFTN
Ga0209668_1000020121F025467N/AMKMIKISNINLSTVLQVCLIVMCAFLLMRNPKQVYPVSKQKTVERRIEGKETLIREKGQVIDNSNRFIAELNAGLIDLHSQLDAVRDSKDTFNIVQIQDTMIHVLYRRDKEKDLIIKNQDTIIQAQRYIINSKDTIITAQTFDIKKLKRQRNISVLLSALLGTGLIIK
Ga0209668_1000020125F019105N/AMKKKLLIVGALFITIVVIQIFSSGTEHVVVVEDNIQLTGENKQLTTANKKLTNSVNQLKAENQELVTDKANLENMVAEVIGDLDSTKSIVKDIKKELAHEKDVNIKQSTGDQFDFQPIKLPAEDGNQR
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