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Cyclophilin 3 Complexed With Dipeptide Ala-Pro
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DYW PDB ENTRY 1DYW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.6 MPEG5000, SODIUM CITRATE, PH 5.6
Crystal Properties Matthews coefficient Solvent content 3.08 59.73
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.035 α = 90 b = 61.035 β = 90 c = 122.66 γ = 90
Symmetry Space Group P 41 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MARRESEARCH COLLIMATOR M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE ENRAF-NONIUS FR571
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 1.9 25 97.6 0.079 12.85 7.92 19230
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 1.9 1.93 88.2 0.332 2.13
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE PDB ENTRY 1DYW 1.9 10 17589 934 93.4 0.1826 0.2505 RANDOM
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]
Coordinate Error Structure Solution Method Refinement High Resolution Refinement Low Resolution 1497.31
RMS Deviations Key Refinement Restraint Deviation s_anti_bump_dis_restr 0.148 s_similar_adp_cmpnt 0.086 s_non_zero_chiral_vol 0.049 s_zero_chiral_vol 0.038 s_angle_d 0.028 s_from_restr_planes 0.0278 s_bond_d 0.023 s_similar_dist 0.008 s_rigid_bond_adp_cmpnt s_approx_iso_adps
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1297 Nucleic Acid Atoms Solvent Atoms 229 Heterogen Atoms 13
Software Software Software Name Purpose SHELXL-97 refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing