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X-ray structure of complex of human cyclophilin J with cyclosporin A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2OK3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.4 0.1MOL/L TRIS-HCL(PH=7.4), 6%(V/V) DMSO, 18%(W/V) PEG8000, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293.0K
Crystal Properties Matthews coefficient Solvent content 3.04 59.63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.387 α = 90 b = 64.387 β = 90 c = 200.943 γ = 120
Symmetry Space Group P 31 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 293 CCD 2005-02-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BSRF BEAMLINE 3W1A BSRF 3W1A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 2.4 50 97.6 0.076 19272 42.5
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.4 2.49 83.4 0.406
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2OK3 2.4 30 18460 1793 93.7 0.193 0.193 0.1914 0.237 0.2342 RANDOM 51.3
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] -2.47 1.34 -2.47 4.95
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 24.9 c_scangle_it 3.23 c_mcangle_it 2.33 c_scbond_it 2.1 c_mcbond_it 1.4 c_angle_deg 1.3 c_improper_angle_d 0.77 c_bond_d 0.007 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 24.9 c_scangle_it 3.23 c_mcangle_it 2.33 c_scbond_it 2.1 c_mcbond_it 1.4 c_angle_deg 1.3 c_improper_angle_d 0.77 c_bond_d 0.007 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2762 Nucleic Acid Atoms Solvent Atoms 32 Heterogen Atoms
Software Software Software Name Purpose AMoRE phasing CNS refinement HKL-2000 data reduction HKL-2000 data scaling