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 Ga0255074_1000022

Scaffold Ga0255074_1000022


Overview

Basic Information
Taxon OID3300027121 Open in IMG/M
Scaffold IDGa0255074_1000022 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Columbia River, Oregon, United States - Colum_Yuk_RepC_8h
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)25706
Total Scaffold Genes49 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)12 (24.49%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (50.00%)
Associated Families6

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → River → Unclassified → Freshwater → Freshwater Microbial Communities Amended With Dissolved Organic Matter (Dom) From Various Rivers In The United States

Source Dataset Sampling Location
Location NameUSA: Oregon
CoordinatesLat. (o)46.1812Long. (o)-123.1834Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001732Metagenome / Metatranscriptome644Y
F003904Metagenome / Metatranscriptome462Y
F004723Metagenome / Metatranscriptome426Y
F008080Metagenome / Metatranscriptome339Y
F014128Metagenome / Metatranscriptome265Y
F034921Metagenome / Metatranscriptome173Y

Sequences

Protein IDFamilyRBSSequence
Ga0255074_100002221F008080GGAMLKIKIWMRGTNEYNRDTIDGPTPEQTQEQFEDAFRDSDECFCGGDVYETCPYFSTDGYDSVDVYLGGNEHIENNEEPIFTTSDWSQFQFEKGGGCNYIPQEPDEVGKVNIWWYHDMKFNYIYYWENVTEFDPKKLTVQYGVDQDGQKYLEEVYYNGEAPDDYHDHGDTGYGYTGPEFVYHPEQKFAEEDED
Ga0255074_10000224F034921GAGMSYIGVAPQDQENFQHKVVEAQIDFSNYIYPDSKESYWATVDRYWPQIKDIVLMFTLLDEDELDKCVKERSPAIGSIFNNAWFKAPDDGRIHLIPAWHIFCDLCSESYLLHEN
Ga0255074_100002245F014128N/AMEQLQKMGIQLGFLISGLFGAILMATKNEKTDVKSVVLSLVGGMSAANFLTPVLVDTLNIANVKHQNGVAFIAGFLGLKLVELISEKFLEKINGSSKGKIKKRKPRKS
Ga0255074_100002246F003904N/AMNEIFSNIKKYLLVILLPTALLVILSLSCLKDIEKAFARFRFGRDITLYLRKSTDHLTYLGAAYTATGDKKFIEQFNTHLKEREKYFNNEVFISKILTQEELKEFRVGLDISNELAKEVETPAFEKMDSKAFFGEKYLDYKKKIYDSKDKFRTLINDSSERIIKEETQLLNIYLYSLCLIIIALVYLIKHDNHPVAQKKPIKKKKK
Ga0255074_100002247F001732N/AMKKLLFLPFVLLILTGCFSTIKPSKQIDDNQKVIAKEEKKVDNTLVEIEKNDKGKRIQTSGLSVGIQHSLNQVTNAPVQVDTALKLNERVISIVGSPHIDETKRIKATVDLLNSALVEERRKGEEMLSQRDEIINKLQKEKAELNQKYDDQLWQLTDKAKEVAKEADQNKAVLDSMSGMFGLNAVFWGLKKFFISALTTIVIFVVVFVILRLLATVHPAAAAAFSIFNMLGSLVISILKALTPKAFELANFATKDKVEEFKSPLVKIVDVIQELKEKQKESPDRVYPLNELLKRFDKEMDKPEKDLIDNILKEQKWIK
Ga0255074_10000229F004723GGAMKKGDKFIHTDIVGRKHELTYTGTRRIVKDCEFEFFTDDKGKVCFFTDTEVKKMEKKD
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