X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1XO71XO7, CYCLOPHILIN

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1850MM POTASSIUM PHOSPHATE, 40% PEG 8000, 2MM CYCLOSPORIN A, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 25K, TEMPERATURE 298K
Crystal Properties
Matthews coefficientSolvent content
2.4850.31

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 52.269α = 110.49
b = 57.059β = 108.21
c = 58.807γ = 105.4
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 42004-09-22MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALS BEAMLINE 5.0.1ALS5.0.1

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
12.075094.4299521.8
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.072.1294.2

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 REPLACEMENTTHROUGHOUT1XO7, CYCLOPHILIN2.0749.3929952159094.40.1720.1690.235RANDOM25.08
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]
-1.270.72-0.621.16-0.110.03
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg7.56
r_scangle_it5.451
r_scbond_it3.36
r_angle_refined_deg2.056
r_mcangle_it1.933
r_mcbond_it1.093
r_symmetry_vdw_refined0.257
r_nbd_refined0.248
r_xyhbond_nbd_refined0.176
r_chiral_restr0.154
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg7.56
r_scangle_it5.451
r_scbond_it3.36
r_angle_refined_deg2.056
r_mcangle_it1.933
r_mcbond_it1.093
r_symmetry_vdw_refined0.257
r_nbd_refined0.248
r_xyhbond_nbd_refined0.176
r_chiral_restr0.154
r_symmetry_hbond_refined0.121
r_bond_refined_d0.023
r_gen_planes_refined0.009
r_bond_other_d
r_angle_other_deg
r_dihedral_angle_2_deg
r_dihedral_angle_3_deg
r_dihedral_angle_4_deg
r_gen_planes_other
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
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 Atoms4068
Nucleic Acid Atoms
Solvent Atoms288
Heterogen Atoms

Software

Software
Software NamePurpose
EPMRphasing
REFMACrefinement
ELVESdata reduction
ELVESdata scaling