1ME5

Crystal Structure of Mycobacterium Tuberculosis Alkylperoxidase AhpD H132Q Mutant


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1LW1pdb entry 1LW1

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6AMMONIUM ACETATE, SODIUM CITRATE, PEG 4000, MOPS, KCL, EDTA, GLYCEROL, pH 6, VAPOR DIFFUSION, HANGING DROP, temperature 110K
Crystal Properties
Matthews coefficientSolvent content
1.9938.35

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 100.119α = 90
b = 58.652β = 120.47
c = 88.914γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray110CCDADSC QUANTUM 4mirrors2002-04-16MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSRS BEAMLINE PX9.60.87SRSPX9.6

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
12.45093.617576164452250.165
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
2.42.5187.8

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (F)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTpdb entry 1LW12.45021675516445164893.60.23940.23490.22340.3504random45.13
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
-3.862.422.950.91
RMS Deviations
KeyRefinement Restraint Deviation
x_dihedral_angle_d19.5
c_dihedral_angle_d19.47033
c_scangle_it6.144
c_mcangle_it4.845
c_scbond_it4.229
c_mcbond_it3.154
x_angle_deg1.4
c_angle_deg1.38725
c_improper_angle_d0.95348
x_improper_angle_d0.95
RMS Deviations
KeyRefinement Restraint Deviation
x_dihedral_angle_d19.5
c_dihedral_angle_d19.47033
c_scangle_it6.144
c_mcangle_it4.845
c_scbond_it4.229
c_mcbond_it3.154
x_angle_deg1.4
c_angle_deg1.38725
c_improper_angle_d0.95348
x_improper_angle_d0.95
x_bond_d0.008
c_bond_d0.007785
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3845
Nucleic Acid Atoms
Solvent Atoms370
Heterogen Atoms

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
CNSrefinement
CNSphasing