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 JGI20214J51088_10023016

Scaffold JGI20214J51088_10023016


Overview

Basic Information
Taxon OID3300003432 Open in IMG/M
Scaffold IDJGI20214J51088_10023016 Open in IMG/M
Source Dataset NameWetland sediment microbial communities from Twitchell Island in the Sacramento Delta, sample from surface sediment Aug2011 Site B2 Bulk
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4243
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → Desulfosarcina → Desulfosarcina variabilis(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Wetlands → Sediment → Wetland → Microbial Community Impact On Carbon Sequestration In Managed Wetland Carbon Farming

Source Dataset Sampling Location
Location NameSacramento, California, United States
CoordinatesLat. (o)38.1072Long. (o)-121.6485Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F040402Metagenome / Metatranscriptome162Y
F056185Metagenome138Y

Sequences

Protein IDFamilyRBSSequence
JGI20214J51088_100230162F056185AGGAGGMRPRMLLLFRLLMVLASAFIIAGCTGPQAKIRKVDLPKEKELRANWKNYHTYCLGSYAMLFQLKGDQIIQRDDPWREVTSDEMASGCASFLIDSSPVMQLLGENEKIFGYVIYNFDDQIWASIIDPKTIRLFYHVHPKGP*
JGI20214J51088_100230163F040402AGGAMIKHNTRVNLTVAAALAILISACSIANFGWLRNSQDVGQAFETLHVSSDYRYWYLYLENTPYAVLGLNREYRIEDISWTEVEPSSEAFWKVVELVQNFPVPGSRTCGAYILDAKGEQIGVWYSSMSAGISIDPDTKIVFITTGTPWMGGDGNDSGGRD*
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