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Structure of human cyclophilin A in complex with the novel immunosuppressant sanglifehrin A at 1.6A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1CWA PDB ENTRY 1CWA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 Mg acetate, Na cacodylate, PEG4000, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.2 42.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.6 α = 90 b = 65.4 β = 90 c = 76.6 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 293 IMAGE PLATE MARRESEARCH 1997-01-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM1A 0.873 ESRF BM1A
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 1.6 15 99.2 0.075 16.4 4.3 41593 14.4
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) 1.6 1.66 100 0.456 1.9 4.2 4102
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 (All) 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 1CWA 1.6 15 39452 39452 2096 98.81 0.1644 0.1644 0.16332 0.1734 0.18461 0.1905 RANDOM 14.282
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] 0.12 -0.14 0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 12.729 r_dihedral_angle_1_deg 3.583 r_scangle_it 2.849 r_scbond_it 1.778 r_mcangle_it 1.263 r_angle_refined_deg 1.183 r_angle_other_deg 0.694 r_mcbond_it 0.648 r_symmetry_vdw_other 0.272 r_nbd_refined 0.215
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 12.729 r_dihedral_angle_1_deg 3.583 r_scangle_it 2.849 r_scbond_it 1.778 r_mcangle_it 1.263 r_angle_refined_deg 1.183 r_angle_other_deg 0.694 r_mcbond_it 0.648 r_symmetry_vdw_other 0.272 r_nbd_refined 0.215 r_symmetry_hbond_refined 0.212 r_nbd_other 0.2 r_symmetry_vdw_refined 0.17 r_xyhbond_nbd_refined 0.123 r_chiral_restr 0.075 r_xyhbond_nbd_other 0.025 r_bond_refined_d 0.007 r_gen_planes_refined 0.004 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2516 Nucleic Acid Atoms Solvent Atoms 362 Heterogen Atoms 156
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling X-PLOR phasing