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 Ga0207665_10000001

Scaffold Ga0207665_10000001


Overview

Basic Information
Taxon OID3300025939 Open in IMG/M
Scaffold IDGa0207665_10000001 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L11-2 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)279842
Total Scaffold Genes251 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)164 (65.34%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameUSA: Michigan: Kellogg Biological Station
CoordinatesLat. (o)42.4774Long. (o)-85.451Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F021844Metagenome217Y
F081705Metagenome / Metatranscriptome114Y

Sequences

Protein IDFamilyRBSSequence
Ga0207665_10000001166F081705GGAGGMSKETLVAEREWARALARRVASQLPEAIRQVRDVHLTPAQVKELKEAFENTLIVNMGCERPPADQ
Ga0207665_10000001207F021844AGGLKQPLSIIFLALLVTLSVKDAHTKTETAFSPCKVGQQAAAIGFWTWASNAHVKVYLRSADFSSEQISYLLNALENWNNVSELTGSGVKFENQGSTARQLSCENCLTIMRGPVFDRTKRHATELKVYSAHSDQIITYATITVDSSLTNPKALQDAIAHELGHNLGLLDCYSCQSNSTLMTQFKAFNVPKEIEGPTRCDIAQVKAAYKELKTRVRRSPINGHSIFDDEGEEPIDDDTPVVIPKP
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