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_1000052

Scaffold Ga0255074_1000052


Overview

Basic Information
Taxon OID3300027121 Open in IMG/M
Scaffold IDGa0255074_1000052 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)16627
Total Scaffold Genes34 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)29 (85.29%)
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 → 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?
F012967Metagenome / Metatranscriptome275Y
F015854Metagenome / Metatranscriptome251Y
F016938Metagenome / Metatranscriptome243Y
F022591Metagenome / Metatranscriptome213Y
F045570Metagenome / Metatranscriptome152Y

Sequences

Protein IDFamilyRBSSequence
Ga0255074_10000521F015854AGGMSNALDSFVTYLADGNTVTSRQIRAMFKVDNAADLAYRARNEGISVYTNRVTNSRGEKVFAYRLGNPSAQFEKYLEQGKIARARKTLYRDAINVSMTA
Ga0255074_100005212F045570GGAGVATRRNFFKYLGLAGGVATGGVVAAAAVLPDAEKCEAIKEIKAAGYNGKLNIGTEYGELAPPNGTISFGPKFVPGTEKRVTASMTVGPDGEMYLMTNGKWRRIVTE
Ga0255074_100005219F022591N/AMKCENTVKIGDVVKSLDFVGVNDCFYVGLVVGISKMDGTFRAKTIKRVWQGQIDKKIPSDFFTAPMPGNFLFDDEFTTPRIQVVA
Ga0255074_100005222F016938N/AMKKQTETLLSEAIDLVNGVDHVLANTMTQYDLSAKNCYDLAEKLERARNLLLVVGDRKYQAELNQVSIPTEGVPF
Ga0255074_100005225F012967AGGMTNDHNAYAYRRSVLASKARVAFDPSNKKHMLDFAKFVKYNSWRDGCSYFLEDPFTDIPTMIRSKIADHTLSKLVEKV
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