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_10002511

Scaffold JGI12421J11937_10002511


Overview

Basic Information
Taxon OID3300000756 Open in IMG/M
Scaffold IDJGI12421J11937_10002511 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)7386
Total Scaffold Genes21 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)17 (80.95%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

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?
F009531Metagenome / Metatranscriptome316Y
F020910Metagenome / Metatranscriptome221Y
F040623Metagenome / Metatranscriptome161Y
F063708Metagenome129Y

Sequences

Protein IDFamilyRBSSequence
JGI12421J11937_1000251110F020910GAGGMWSKYTFVCDPDECDAMVEFTARDGFGFPLGSVEMTCPCGRKLNYISYEDAWEPILADVTKITPREVVKINTNPYN*
JGI12421J11937_1000251111F040623AGGGGGMKVRISLEQTIDIDDAMSNDIGFELYGPPDMSTEDKVDYLMARFAEDIDTMVKYDEVLGNISIEYIED*
JGI12421J11937_1000251115F009531N/AMTQQVAIYEMNYSCSPGGVDCWEATINGYGTSSTASDFKTAGEALNWVLDRHPDEMLELVVTSLPAYEKEYV*
JGI12421J11937_100025119F063708N/AMDLNTFKEYINLHLISLEQDLEENPASIHVVDIEGQIYATKHLMEVLNER*
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