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 Ga0114343_1027375

Scaffold Ga0114343_1027375


Overview

Basic Information
Taxon OID3300008110 Open in IMG/M
Scaffold IDGa0114343_1027375 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Harmful Algal Blooms in Lake Erie, Western Basin, USA - Station WLE12, Sample E2014-0048-3-NA
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterUniversity of Michigan
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2423
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (40.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Nitrosomonadales → Methylophilaceae → unclassified Methylophilaceae → Methylophilaceae bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater, Plankton → Harmful Algal Blooms In Lake Erie

Source Dataset Sampling Location
Location NameLake Erie, USA
CoordinatesLat. (o)41.7026Long. (o)-83.2538Alt. (m)Depth (m)6
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000473Metagenome / Metatranscriptome1097Y
F003582Metagenome / Metatranscriptome478Y
F012975Metagenome / Metatranscriptome275Y
F023851Metagenome / Metatranscriptome208Y

Sequences

Protein IDFamilyRBSSequence
Ga0114343_10273752F003582N/AMNTYKVKLEVEAEVEAFDETDALDYASDIFGIDDEIKNVRVISVKEK*
Ga0114343_10273755F012975AGGAMLNLTLKGVEVFIKRSATKNQESYWENYDLLIWKQSAGGFTDIKGMFRKDQWGVTERIPVNENGIWKLPAKYVRHFR*
Ga0114343_10273757F000473AGGMEFINKDKNHFKYGINQWTGEPNKPVFYNKSMSDAIRGIQKPVIGLQMDIVKYPEFLCLRLYEDNFIQFTGNKKEMVIDYLEKVKKVIESYGVRCELEGVPSQNVLGKGI*
Ga0114343_10273758F023851N/AMCETCVSSKLEPRWVIILSGRQLGPESVKDFILKKRYLGNDIAASELFI*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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