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Human Cyclophilin A Complexed with an Inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2CYH PDB ENTRY 2CYH
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 291 100 mM HEPES, 20% PEG10000, 5% ethanol, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.29 46.24
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.774 α = 90 b = 52.377 β = 90 c = 86.965 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 4 2009-03-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 ESRF ID14-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.14 35 98.7 0.057 2.5 10210 10078 11.3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.14 2.195 97.2 0.494 1.2 2.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 PDB ENTRY 2CYH 2.14 33.46 10210 10078 509 98.26 0.21829 0.21561 0.216 0.27165 0.2624 RANDOM 32.128
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] 1.6 1.97 -3.56
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.73 r_dihedral_angle_3_deg 15.71 r_dihedral_angle_4_deg 10.579 r_dihedral_angle_1_deg 6.487 r_scangle_it 1.825 r_angle_refined_deg 1.23 r_scbond_it 1.129 r_mcangle_it 0.949 r_angle_other_deg 0.83 r_mcbond_it 0.501
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.73 r_dihedral_angle_3_deg 15.71 r_dihedral_angle_4_deg 10.579 r_dihedral_angle_1_deg 6.487 r_scangle_it 1.825 r_angle_refined_deg 1.23 r_scbond_it 1.129 r_mcangle_it 0.949 r_angle_other_deg 0.83 r_mcbond_it 0.501 r_mcbond_other 0.082 r_chiral_restr 0.077 r_bond_refined_d 0.01 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1249 Nucleic Acid Atoms Solvent Atoms 90 Heterogen Atoms 18
Software Software Software Name Purpose DNA data collection X-PLOR model building REFMAC refinement MOSFLM data reduction SCALA data scaling X-PLOR phasing