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 Ga0207642_10000005

Scaffold Ga0207642_10000005


Overview

Basic Information
Taxon OID3300025899 Open in IMG/M
Scaffold IDGa0207642_10000005 Open in IMG/M
Source Dataset NameMiscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS Miscanthus M2-2 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)401934
Total Scaffold Genes417 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)282 (67.63%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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

Ecosystem & Geography

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

FamilyCategoryNumber of Sequences3D Structure?
F003627Metagenome / Metatranscriptome476Y
F005789Metagenome / Metatranscriptome390Y
F064701Metagenome / Metatranscriptome128Y

Sequences

Protein IDFamilyRBSSequence
Ga0207642_10000005198F003627N/AVDRETARAKMSAGLLAGGIVAAIFALCFVVAMLYVAS
Ga0207642_10000005249F064701AGGMRLEEGRPGGVAPALVPIALGDPLRVGGGGIPSGRGRTLYYSMRHRTQLYLDEGQYRWLKQRAGEAGSIAAVVRELIDAERVRRLDPTEDPLLSYLVSESPGKGRERTSVTSLDRDLYGQ
Ga0207642_1000000587F005789GGAMATAVGLDASPLNVLRSMRGRIVDARVAYPEVLHVEVKDSAGELWRLATQDAEWSPSDPAELVGRSVDDADIDGETGELRCKLSDGSLLDVKPAAREAEDDPPNWELITPSGVVLEFGPGVRWQIGSADSRASARA
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