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 JGI12421J11937_10011607

Scaffold JGI12421J11937_10011607


Overview

Basic Information
Taxon OID3300000756 Open in IMG/M
Scaffold IDJGI12421J11937_10011607 Open in IMG/M
Source Dataset NameFreshwater microbial communities from dead zone in Lake Erie, Canada - CCB hypolimnion July 2011
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3370
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (30.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (20.00%)
Associated Families5

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Hypolimnion → Freshwater And Sediment → Freshwater And Sediment Microbial Communities From A Dead Zone In Lake Erie, Usa

Source Dataset Sampling Location
Location NameLake Erie, Canada
CoordinatesLat. (o)41.77Long. (o)-81.73Alt. (m)Depth (m)20
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001808Metagenome / Metatranscriptome631Y
F003327Metagenome / Metatranscriptome494Y
F004234Metagenome / Metatranscriptome447Y
F009004Metagenome / Metatranscriptome324Y
F015420Metagenome / Metatranscriptome255Y

Sequences

Protein IDFamilyRBSSequence
JGI12421J11937_100116072F003327GAGMINEFTQLAIKVQDEIANGDYTHQKYLQFREWYFQNYEGSKRNANRDFAMFDLMYGLDVPIKNDSNEDV*
JGI12421J11937_100116074F004234N/AMNFIDLYKNGNQYISNWTTDYDSDVYIAGTIEPFTYNATETDDGDMSQFPLSDANLNLLKSKL*
JGI12421J11937_100116075F015420N/AMKKLINYFTPVGEEQIAFAKALMVVFTAIISILFLFTFLELIS*
JGI12421J11937_100116076F009004N/AMKTFNQILDYLEVQQQEDKLTTNQLHLIIQTLTTFLNKEQLQEIENLFNQFKK*
JGI12421J11937_100116078F001808N/AMRYLAIILLLSSCSAQYHLNKAIKKGYSCEETGDTIRITTLDSIPVIINNDIIWEKFITTKDTIIKYKSVYVPKTRLDKKIEYRLKVKTIYKDRIVEKAQAKATRPRTRGNLSLLFVGVGIGLLLSYLFKFARDKYLF*
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