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 Ga0209617_10000123

Scaffold Ga0209617_10000123


Overview

Basic Information
Taxon OID3300027720 Open in IMG/M
Scaffold IDGa0209617_10000123 Open in IMG/M
Source Dataset NameFreshwater microbial communities from dead zone in Lake Erie, Canada - CCB epilimnion July 2011 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)29717
Total Scaffold Genes69 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)24 (34.78%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Epilimnion → Freshwater And Sediment → Freshwater And Sediment Microbial Communities From A Dead Zone In Lake Erie, Usa

Source Dataset Sampling Location
Location NameLake Erie, Canada
CoordinatesLat. (o)41.77Long. (o)-81.73Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000345Metagenome / Metatranscriptome1253Y
F013889Metagenome / Metatranscriptome267Y
F025022Metagenome / Metatranscriptome203Y
F072274Metagenome / Metatranscriptome121Y
F085130Metagenome / Metatranscriptome111Y

Sequences

Protein IDFamilyRBSSequence
Ga0209617_1000012314F072274N/AMNTDGYISSDGTWAAVPWYGKRCVSIYNGEQICTHNTLETAKKFIQKETRRKK
Ga0209617_1000012316F085130GGAMTSYYFWFGIFMFIGYLIVTDNSVAYAFALVLKLIKFQYEKQKWWLLNNPRNPVVKWLMWRRALRIAKELEKELKK
Ga0209617_1000012317F013889N/AMSRTNRNLDGMHRYALRFPHTFNEIKQLDGILHEEDLEGLPVSGLNHMKSREHNLPTAWDDKVISAYYEADTQ
Ga0209617_1000012329F000345GAGMTDKEKPVINPEELQKPNNLGTALEQWWDSDACKELQKSNEEAKQRAVGKYFMLSEEDKLDMVQAICLIMCKAEKEGTSHRGLQDALGIYPAGFWVDHMMEVHNALWSYYHDKKQKEELDKDIETLQKFTET
Ga0209617_1000012336F025022GGAMELTIVAYKLEDGLWAFDHPHNNTVQELLLNGTEEAIDEHFYFGTGRHAVEKDQMEIILNTEEPDDYDTLLVKEVGDDDGTTYTDTTLCAPVWLCPWLQGYFGEVPEEIFVKVRPINQGLEGFVNRTGMRGLLNK
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