3G56

Structure of the macrolide biosensor protein, MphR(A)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free: 0.284 
  • R-Value Work: 0.220 
  • R-Value Observed: 0.223 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structure and function of the macrolide biosensor protein, MphR(A), with and without erythromycin

Zheng, J.Sagar, V.Smolinsky, A.Bourke, C.LaRonde-LeBlanc, N.Cropp, T.A.

(2009) J Mol Biol 387: 1250-1260

  • DOI: 10.1016/j.jmb.2009.02.058
  • Primary Citation of Related Structures:  
    3FRQ, 3G56

  • PubMed Abstract: 
  • The regulatory protein MphR(A) has recently seen extensive use in synthetic biological applications, such as metabolite sensing and exogenous control of gene expression. This protein negatively regulates the expression of a macrolide 2'-phosphotransferase I resistance gene (mphA) via binding to a 35-bp DNA operator upstream of the start codon and is de-repressed by the presence of erythromycin ...

    The regulatory protein MphR(A) has recently seen extensive use in synthetic biological applications, such as metabolite sensing and exogenous control of gene expression. This protein negatively regulates the expression of a macrolide 2'-phosphotransferase I resistance gene (mphA) via binding to a 35-bp DNA operator upstream of the start codon and is de-repressed by the presence of erythromycin. Here, we present the refined crystal structure of the MphR(A) protein free of erythromycin and that of the MphR(A) protein with bound erythromycin at 2.00- and 1.76-A resolutions, respectively. We also studied the DNA binding properties of the protein and identified mutants of MphR(A) that are defective in gene repression and ligand binding in a cell-based reporter assay. The combination of these two structures illustrates the molecular basis of erythromycin-induced gene expression and provides a framework for additional applied uses of this protein in the isolation and engineered biosynthesis of polyketide natural products.


    Organizational Affiliation

    Department of Chemistry and Biochemistry, University of Maryland, College Park, MD 20742, USA.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Regulator of macrolide 2'-phosphotransferase IA, B195Escherichia coliMutation(s): 0 
Gene Names: 
mphR(A)mphRmphR_1mphR_2TF1-34_00092AKG29_00740AM340_05555B6R12_004235B6R12_005522B6R15_004956B6R15_005534B9T59_28650BANRA_05010BANRA_05395BE930_01680BE963_00530BH692_25850BJI68_09320BJJ90_27670BK272_26520BK292_28800BK373_25645BK375_28450BMC34_003793BON83_00190BON86_00145BON94_01610BON96_04020BVL39_07785BVL39_26565C5542_004931C5N07_27930C5Y87_27160CBT22_004985CBT22_005561CDL36_28350CDL57_28215CQP61_00550CWS33_26295D0X26_00055D0X26_28400D3O91_28140D4U49_26715D4U49_28860D6T60_27200DS732_30515EI021_26240EI041_22570ELT17_24430ELT17_26475ELT29_23940ELT31_24945ELT31_26135ELT33_25205ELT72_25050ELV08_25545ELV13_25025ELV15_24050ELV22_23860ELV22_25950ELV24_24190ELV24_25775ELV28_26245ELV28_27665ELV28_29600ELX56_25515ELX56_25975ELX68_23705ELX68_25530ELX76_26515ELX76_27695ELX79_23930ELX79_27650ELX83_26000ELX83_26685ELX96_23265ELX96_27930ELY23_24440ELY23_26150ELY32_25825ELY32_27360ELY41_23020ELY41_28155ELY48_25450ELY48_27325ELY50_24970ELY50_26950ERS085366_04056Esc0902E_48430ETN48_p0081EXX13_27025F3N40_24935F3N40_27770F6U69_26315F6U69_27695G3565_27970G5603_26380G5632_22890G6P89_27015GLW94_27635GLW94_28185GRC73_23715GRC73_24600HJU54_005030HJU54_005226HL601_25835HL601_27160HLU10_23930HLU10_24680HLV18_23935HLV18_24700HLZ20_25750HLZ20_27520HMJ82_28315HMJ82_29150HMT08_26640HMV95_24735HMV95_26340HNC38_25500HNC38_27335HNC52_26365HNC59_25655HNC59_29525HNC99_25600HNC99_29545HND12_28575HND12_30635HND24_26410HND24_27750HNV94_25590HNV94_28015HNY50_24470HNY50_26475HPE39_25965HVX16_27910RCS28_PI0043RCS51_P0076RCS55TR727_P0019RCS57_p0098RCS65_P0019RCS78_P0035RCS79_P0004SAMEA4362930_00093SAMEA4370330_00106SAMEA4370365_00009SAMEA4370473_00003THOESC010_P11180TUM18780_18890TUM18780_46310

UniProt
Find proteins for Q9EVJ6 (Escherichia coli)
Explore Q9EVJ6 
Go to UniProtKB:  Q9EVJ6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9EVJ6
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download Ideal Coordinates CCD File 
D [auth A],
E [auth B],
F [auth B]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
EDO
Query on EDO

Download Ideal Coordinates CCD File 
C [auth A]1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free: 0.284 
  • R-Value Work: 0.220 
  • R-Value Observed: 0.223 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 37.421α = 90
b = 113.761β = 93.87
c = 43.392γ = 90
Software Package:
Software NamePurpose
HKL-2000data collection
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report




Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2009-03-03
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Non-polymer description, Version format compliance