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 Ga0105245_10000010

Scaffold Ga0105245_10000010


Overview

Basic Information
Taxon OID3300009098 Open in IMG/M
Scaffold IDGa0105245_10000010 Open in IMG/M
Source Dataset NameMiscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS M5-4 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)278233
Total Scaffold Genes254 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)147 (57.87%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Miscanthus 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?
F001605Metagenome / Metatranscriptome664Y
F002324Metagenome571Y
F004159Metagenome / Metatranscriptome450Y
F071587Metagenome / Metatranscriptome122Y

Sequences

Protein IDFamilyRBSSequence
Ga0105245_10000010184F002324GGAGGMGEVRLFQVCFEGELTLAVSDAMRRLGAEPNFDQSWNVWLPEGGHAELLVRYLRIEVGDDARVLVGCSQFTNTRDFLLIRHSLTPGADYSELHDAIGRLGVVVDLPFESTFVIQSNDHTDVNTLGRALGELCPDDALFVTGISHDWAYCDGTTSRMYVTEQEPKSIQFRTF*
Ga0105245_10000010223F071587N/AVLDLNAHGIKNTAALLGGWNGWVEAKLPTEKAETK*
Ga0105245_1000001038F004159N/AMDYDFPIREKASQLGNALAESGPEALFEEIENLLPESWREHIRTFPIAAVVLGVGVGVWLGMRKGDEVIAAGTSMITAAAMQNVTNVMHAATGGGNE*
Ga0105245_1000001054F001605N/AMPVTQTEPQTLAQVPFKVLDETLRQLRSTRNDIIRYGVWNTRNLTDDEFNHADDRKLLGYFRQDLLETRFLSKGRRIDLIQLWHWFDDQMTGTEPMLIGGEEHFVNVQDKDLDKVRKRISEIQSFLPTLRGDDLEAFKRVKYKLRRTVLRLTYDLHHLFKRLEKYRKNFGGPMAPRAERLPLEAAVDIPEPPPIDEHDEE*
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