7DLQ

CRYSTAL STRUCTURE OF THE COMPLEX OF LACTOPEROXIDASE WITH HYDROGEN PEROXIDE AT 1.77A RESOLUTION


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3GC1 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.8298Ammonium Iodide, PEG 3350, VAPOR DIFFUSION, HANGING DROP, temperature 298K, pH 6.8
Crystal Properties
Matthews coefficientSolvent content
2.4549.76

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 54.231α = 90
b = 79.837β = 102.67
c = 77.548γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCHmirror2010-05-13MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE BM140.97ESRFBM14

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym I (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
11.7734.5798.90.066.94.262590
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.771.8960.422.93.1

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTFREE R-VALUE3GC11.77334.56961488310798.1770.1890.18690.225731.73
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]
-0.0050.005-0.020.021
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.7
r_dihedral_angle_4_deg15.467
r_dihedral_angle_3_deg14.179
r_lrange_it8.556
r_lrange_other8.555
r_dihedral_angle_1_deg6.792
r_mcangle_it5.423
r_mcangle_other5.423
r_scangle_it4.83
r_scangle_other4.83
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.7
r_dihedral_angle_4_deg15.467
r_dihedral_angle_3_deg14.179
r_lrange_it8.556
r_lrange_other8.555
r_dihedral_angle_1_deg6.792
r_mcangle_it5.423
r_mcangle_other5.423
r_scangle_it4.83
r_scangle_other4.83
r_mcbond_it3.43
r_mcbond_other3.406
r_scbond_it3.166
r_scbond_other3.165
r_chiral_restr_other2.965
r_angle_other_deg2.678
r_angle_refined_deg1.922
r_xyhbond_nbd_other0.677
r_nbd_other0.395
r_symmetry_xyhbond_nbd_refined0.363
r_symmetry_nbd_refined0.354
r_symmetry_nbd_other0.225
r_nbd_refined0.22
r_xyhbond_nbd_refined0.207
r_nbtor_refined0.174
r_chiral_restr0.125
r_metal_ion_refined0.116
r_symmetry_nbtor_other0.084
r_bond_other_d0.034
r_symmetry_xyhbond_nbd_other0.027
r_gen_planes_other0.017
r_bond_refined_d0.013
r_gen_planes_refined0.011
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4813
Nucleic Acid Atoms
Solvent Atoms657
Heterogen Atoms115

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
SCALEPACKdata scaling
MOLREPphasing