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_1002487

Scaffold Ga0255074_1002487


Overview

Basic Information
Taxon OID3300027121 Open in IMG/M
Scaffold IDGa0255074_1002487 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)2697
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (22.22%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Associated Families4

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

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?
F007859Metagenome / Metatranscriptome343Y
F008688Metagenome / Metatranscriptome329N
F010081Metagenome / Metatranscriptome308Y
F013524Metagenome / Metatranscriptome270Y

Sequences

Protein IDFamilyRBSSequence
Ga0255074_10024874F010081N/AMKEQIDSIIKKHCLKMQEVDKNKSIPMTVKDLDHIVYDMYRELYGLRDIRASNYHLNSFTADDKKGHCC
Ga0255074_10024875F007859GAGMKKLLIIALLCTGCTSGMLLRYSYNRALESLPSCSRVHAINNNYITYSMIENSTNSVYTVYTNYYRAYYNCDGKIINITKN
Ga0255074_10024876F008688N/AMNRFNKIMLGILAAILLTAMTVEPPKIKVYLITSYRGNDLTIEKVYLKKENAEKYRDMYKESHNYSVEERELTE
Ga0255074_10024877F013524N/AMKTNQEVISRLRQFTSYNCNNLLDAKLCEDIRYLCDEVERFSREIVKANNHMDEDHITIQRYKNKLSKYESF
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