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 Ga0207708_10000001

Scaffold Ga0207708_10000001


Overview

Basic Information
Taxon OID3300026075 Open in IMG/M
Scaffold IDGa0207708_10000001 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-10-1 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)467100
Total Scaffold Genes452 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)275 (60.84%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn, Switchgrass And 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?
F002064Metagenome597Y
F067094Metagenome126Y
F089128Metagenome109Y

Sequences

Protein IDFamilyRBSSequence
Ga0207708_10000001435F002064AGGAGMTVVESTSTQLTDQQLALLFQYTVEAYKTFEKLAENLPNPMTAHVFKQFAVDERENRDLIEIKTASAARGRVRITLGSDMIFNEILEGELSYRETSEFLIARERTMQRKLRELITGAAASDRNLLIYLETIKRAHIVELERELELIRVDADWWKREDAEWRIVHGSPE
Ga0207708_100000017F067094N/AMRMSYTNWLRRQVERLEDEIQRHSVFDSAAPASISQLRELRAKSVLHTYLRQQLVRREPIAVPEEEYDTQEFVLVRK
Ga0207708_1000000173F089128N/AVTLLLNLLLGLIPTLALAGSIAAGVDDDVHHRRVFLLVYGLWAITLALWNWLESAHVAWIAVWAAFGLLALALSYHQRSGNVGGSP
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