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 Ga0207660_10000004

Scaffold Ga0207660_10000004


Overview

Basic Information
Taxon OID3300025917 Open in IMG/M
Scaffold IDGa0207660_10000004 Open in IMG/M
Source Dataset NameCorn rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS C7-3B metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)371608
Total Scaffold Genes340 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)239 (70.29%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → 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?
F020989Metagenome221Y
F023370Metagenome / Metatranscriptome210Y
F030366Metagenome / Metatranscriptome185Y
F060672Metagenome / Metatranscriptome132Y
F104658Metagenome100Y

Sequences

Protein IDFamilyRBSSequence
Ga0207660_10000004140F020989N/AVGISNLPDRRKVAVVVTTDGRRAHLPIETAEVPALSLIRSILVGIESLIGLIAGDRREHGGTRRGDRS
Ga0207660_10000004227F104658GGAGGMAGESLLNDLPPNLPADLRAFLECTSDVATIANGPIEWVEIPANVRGLLGGASQPELEITPGAGPSSALLRVRAGWVSATFPASVVDGRLAIDTSRLPMLAPASIANDIRRFVDALNGRLAANGKALAAPSFGADGMTLTKVDRT
Ga0207660_1000000484F030366AGGAGGMPAETMISVLAATLLATGWALWVLPVGQCRECPHCRAEQLARERTEEARTGRYYGIPLCPACGRHHQPEEGHRT
Ga0207660_1000000487F023370GGAGMRTPTTAEAGARSLVWHLESGGWTEREASNLVALLHGLRPATAGWTVREIDHLRFLQAMVQRGRISR
Ga0207660_1000000492F060672AGGAGGMTTDTSATRSSTTRSRATNGGDPSGPAAAVNVAVREMRNAIDGVGRSMPEVARVSRSAVDELVRAVETGSDQQITAGVSLSLGLAMGMLLGGAPRFLILLALAPVAVIGLAMTDRRTARSRGTAAT
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