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 Ga0208975_1000049

Scaffold Ga0208975_1000049


Overview

Basic Information
Taxon OID3300027659 Open in IMG/M
Scaffold IDGa0208975_1000049 Open in IMG/M
Source Dataset NameFreshwater lentic microbial communities from great Laurentian Lakes, MI, USA - Great Lakes metaG ER78MSRF (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)63741
Total Scaffold Genes105 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)87 (82.86%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Unclassified → Freshwater Lentic → Freshwater Lentic Microbial Communities From The Great Laurentian Lakes, Mi, Usa For Biogeochemical Studies

Source Dataset Sampling Location
Location NameGreat Lakes, Michigan, USA
CoordinatesLat. (o)44.701094Long. (o)-82.854085Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006587Metagenome369Y
F010016Metagenome309Y
F029418Metagenome188Y
F031359Metagenome182Y
F088231Metagenome109N

Sequences

Protein IDFamilyRBSSequence
Ga0208975_10000492F088231AGGAMTIEELIKEFSNEQGFQFGIDIVMKSLRPGALYGLSASGGTFEIVSWDETNELPAPSSQEIRDEYIRHQTIKEFIEFMEQAKLNKKNKIRRSA
Ga0208975_100004957F031359GAGGMTDKKQKQIIVEQVMVTGYVKHSNGRKTKFEFYKNDFKPNDLVGIFEGVGRIYQ
Ga0208975_100004958F029418GGAGGMTQHQVNEEKKRKFEEDIIEVAVAEYYEYVDVHKRTRSEKDAKMFYDAMRLGIVRGINFATNQYMQSLKNFEEGKKDGSNN
Ga0208975_100004968F006587AGGAGGMSEEYKGTGFVLVGLIVGCCITWGVMQSIHMQKKSKANLKCIQGELYEEVRTNMFVKSHLECFEQKTLVP
Ga0208975_100004978F010016N/AMKKTSRNDVTGDWMQSKPNNEMFEKNFDLIFRKKKPELAEYELNKSTGNVQKVDHGDTTNTQE
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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