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 Ga0207649_10000003

Scaffold Ga0207649_10000003


Overview

Basic Information
Taxon OID3300025920 Open in IMG/M
Scaffold IDGa0207649_10000003 Open in IMG/M
Source Dataset NameCorn rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS C4-3 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)388908
Total Scaffold Genes404 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)273 (67.57%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Thermoleophilia(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Soil → Unclassified → Corn 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)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F016854Metagenome / Metatranscriptome244Y
F031439Metagenome / Metatranscriptome182Y
F076000Metagenome118Y
F081191Metagenome / Metatranscriptome114Y

Sequences

Protein IDFamilyRBSSequence
Ga0207649_10000003177F081191N/AMSPPRRLPSPEVLVAAIVELADDGFCRRSELALKFPGLGARDLRRALRRAIAQGFVIERRGPDGLFHLAVSSEGWDLHRSG
Ga0207649_10000003179F016854AGGMARSDVKSLPKPDEVWLSCPPYLLMARIVEVDLVSEPPVVSYELHDDDGSLLHEVEHATLDHGWWQTFQRLEPRFG
Ga0207649_10000003205F031439AGGMYLIPLVLIVLLALIAVAWSPIFALIFFVIAFVGFLGYVGLSRRADEKLAPPEQPGRQPQHEAHGGDTGMWGERKA
Ga0207649_10000003376F076000GGAGGMVAVPKGGASQTGWSAIRPVLVGFVIVADAFAVVSLAIVRPPNWFAPFLGFGVVLVGMVALEVWAIRHRRDDERR
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