4JM9

Crystal structure of Cytochrome C Peroxidase W191G-Gateless in complex with 3-amino-1-methylpyridinium


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP6283Apo crystal grown in 500mM MES, pH 6.0. Soaked into 50mM 3-amino-1-methylpyridinium, 25% MPD pH 4.5 (30min-1h), vapor diffusion, sitting drop, temperature 283K
Crystal Properties
Matthews coefficientSolvent content
3.0860.12

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 51.026α = 90
b = 74.702β = 90
c = 106.585γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray80CCDADSC QUANTUM 315r2009-06-16MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALS BEAMLINE 8.3.1ALS8.3.1

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
11.4161.279143

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1.4129.1679143397699.280.11610.11490.1391RANDOM20.0436
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]
0.290.44-0.73
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.694
r_dihedral_angle_4_deg26.329
r_dihedral_angle_3_deg14.404
r_dihedral_angle_1_deg5.831
r_scangle_it5.196
r_scbond_it3.842
r_mcangle_it2.57
r_mcbond_it1.785
r_rigid_bond_restr1.675
r_angle_refined_deg1.672
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.694
r_dihedral_angle_4_deg26.329
r_dihedral_angle_3_deg14.404
r_dihedral_angle_1_deg5.831
r_scangle_it5.196
r_scbond_it3.842
r_mcangle_it2.57
r_mcbond_it1.785
r_rigid_bond_restr1.675
r_angle_refined_deg1.672
r_angle_other_deg0.997
r_mcbond_other0.642
r_chiral_restr0.113
r_bond_refined_d0.018
r_gen_planes_refined0.01
r_gen_planes_other0.002
r_bond_other_d0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2328
Nucleic Acid Atoms
Solvent Atoms435
Heterogen Atoms57

Software

Software
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
ADSCdata collection
DENZOdata reduction
SCALEPACKdata scaling
PHASERphasing