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 Ga0207710_10000281

Scaffold Ga0207710_10000281


Overview

Basic Information
Taxon OID3300025900 Open in IMG/M
Scaffold IDGa0207710_10000281 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS S2-4 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)41434
Total Scaffold Genes38 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)23 (60.53%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Switchgrass Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameMichigan, USA
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003994Metagenome458Y
F007997Metagenome341Y
F065662Metagenome127Y

Sequences

Protein IDFamilyRBSSequence
Ga0207710_100002815F065662GAGMAISNELSSDVAVAILAKKSSPQELQQLKEVILQVHSALQKMSEETRSDRLSRSSHKKAQKAQNEG
Ga0207710_100002816F007997N/AMRSRIERKHVSFKLALAVACLCLSALSTFAADAPSRVMIKPEVSRSHREELIKRLRVITGWRNLTFDSNGALRLGDIPTTGGSESARLLLIEAVAGPNVIVLEDASARTDVAFCRVVRGRWVRDQLNMPPAYVVLIDFKDFQQLSGDAEARAAFDVGWGLLHELDHVVKDSDDARDAKTVGECEDHINRMRLEVGLPVRVDYFFSRAYLKADANFNARYVRLSFARQTKRYWLVWDATTVGGLHSDDQRALVR
Ga0207710_100002817F003994GAGGMSQRRREREQNFLVQCSWCGSKIRDDKKEEANAVCLKCFYQILSNHLRAQKRTAYGEFVSDR
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