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 Ga0208599_1001164

Scaffold Ga0208599_1001164


Overview

Basic Information
Taxon OID3300020554 Open in IMG/M
Scaffold IDGa0208599_1001164 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, WI - 17AUG2012 deep hole epilimnion (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5299
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (77.78%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Vibrionales → Vibrionaceae → Vibrio → Vibrio cholerae(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Epilimnion → Freshwater → Freshwater Microbial Communities From Lake Mendota And Trout Bog Lake, Wisconsin, Usa

Source Dataset Sampling Location
Location NameLake Mendota, Madison, Wisconsin, USA
CoordinatesLat. (o)43.098333Long. (o)-89.405278Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F008616Metagenome / Metatranscriptome330Y
F023328Metagenome210N

Sequences

Protein IDFamilyRBSSequence
Ga0208599_10011643F023328N/AMTVYTPTYRVTIAGVVQTADILSGGTITYGRNDFFEATQPSYCNIELLNKDGASPVVELLDVVIIEVTNSAGSFVKLFTGEVSGVYNRLEAAGAGGKPNTLQIQAIGALGLLVKRTAGAVSYPEELDGARIERILQETLFIAWEDLSNTQTWNDFTTETWDSYGIQGIDTIDPGRYEVLARTAEIDQAFNLTDETQQSGLGYLYDTTDFEIGYADAERRITNYSDNLIELDANLANADIQTRLQTADIVNSVVIQYDDPVLEEAAQNDTSINDYGLLQEIRRTILAQQLDAQEQAVNFVNFRGTPRTSLEEVSVNLANDAMTNIVRDDLLAVSMDTLLYVDNIPVGLISSGFFEGFVEGWTWSLGRRNLELTMSVSNSIYSTLDIQWEDYPSLTQWQNLDNTTQWLDVI
Ga0208599_10011646F008616AGGMLKLKLLWELETGEKFEEWTRPVELSLAEKELYSGKSIVKILIEESTPSNTLLLFLAHKIQQRVTKKVENFDIWKSKVTDITASDFETANFTKPEASGE
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