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Carboxypeptidase B with Sulphamoil Phenylalanine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4Z65
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 LIQUID DIFFUSION 293 PEG 8000, Na-cacodylate, ZnAc2
Crystal Properties Matthews coefficient Solvent content 2.27 45.77
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.93 α = 90 b = 78.93 β = 90 c = 100.59 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 PIXEL DECTRIS PILATUS3 6M 2014-12-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL41XU 0.8 SPring-8 BL41XU
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 1.74 30 98.02 0.099 0.999 5.0365 25.2 32582
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 1.74 1.83 99.24 0.31 2.39 24.76
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 4Z65 1.74 30 30964 1586 97.77 0.14848 0.14677 0.1598 0.18199 0.1893 RANDOM 11.432
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] 0.01 0.01 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.482 r_sphericity_free 17.743 r_dihedral_angle_4_deg 12.979 r_dihedral_angle_3_deg 10.908 r_dihedral_angle_1_deg 5.994 r_sphericity_bonded 5.223 r_long_range_B_refined 2.014 r_long_range_B_other 1.782 r_scangle_other 1.589 r_angle_refined_deg 1.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.482 r_sphericity_free 17.743 r_dihedral_angle_4_deg 12.979 r_dihedral_angle_3_deg 10.908 r_dihedral_angle_1_deg 5.994 r_sphericity_bonded 5.223 r_long_range_B_refined 2.014 r_long_range_B_other 1.782 r_scangle_other 1.589 r_angle_refined_deg 1.306 r_scbond_it 1.292 r_scbond_other 1.292 r_mcangle_other 1.109 r_mcangle_it 1.108 r_angle_other_deg 0.927 r_mcbond_it 0.82 r_rigid_bond_restr 0.819 r_mcbond_other 0.814 r_chiral_restr 0.083 r_bond_refined_d 0.007 r_gen_planes_refined 0.005 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2436 Nucleic Acid Atoms Solvent Atoms 199 Heterogen Atoms 18
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction SCALA data scaling PHASER phasing