2OZ0

Mechanistic and Structural Studies of H373Q Flavocytochrome b2: Effects of Mutating the Active Site Base


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1FCBpdb entry 1FCB

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1EVAPORATION4.6291100 mM Sodium citrate, 17% PEG 3K, 0.2mM Sucrose monolaurate, pH 4.6, EVAPORATION, temperature 291K
Crystal Properties
Matthews coefficientSolvent content
3.8267.81

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 163.689α = 90
b = 163.689β = 90
c = 112.021γ = 120
Symmetry
Space GroupP 32 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray120CCDADSC QUANTUM 42006-07-27MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 23-ID-D1.0APS23-ID-D

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge 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
12.850880.2614.56925436191

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (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 REPLACEMENTTHROUGHOUTpdb entry 1FCB2.85035636194187.60.210.2060.278RANDOM69.71
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]
1.080.541.08-1.61
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.977
r_dihedral_angle_3_deg27.967
r_dihedral_angle_4_deg26.622
r_dihedral_angle_1_deg13.79
r_scangle_it7.292
r_scbond_it4.586
r_angle_refined_deg4.284
r_mcangle_it3.097
r_mcbond_it1.894
r_nbtor_refined0.4
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.977
r_dihedral_angle_3_deg27.967
r_dihedral_angle_4_deg26.622
r_dihedral_angle_1_deg13.79
r_scangle_it7.292
r_scbond_it4.586
r_angle_refined_deg4.284
r_mcangle_it3.097
r_mcbond_it1.894
r_nbtor_refined0.4
r_nbd_refined0.372
r_symmetry_vdw_refined0.317
r_chiral_restr0.302
r_xyhbond_nbd_refined0.286
r_symmetry_hbond_refined0.282
r_metal_ion_refined0.125
r_bond_refined_d0.05
r_gen_planes_refined0.014
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms6914
Nucleic Acid Atoms
Solvent Atoms17
Heterogen Atoms111

Software

Software
Software NamePurpose
REFMACrefinement
ADSCdata collection
HKL-2000data reduction
HKL-2000data scaling