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Crystal structure of the human CARBOXYPEPTIDASE A1 in complex with the PHOSPHINIC INHIBITOR Acetyl-Leu-Ala-Y(PO2CH2)-homoPhe-OH
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2V77 PDB ENTRY 2V77
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 0.2 M CALCIUM CHLORIDE, 0.1 M HEPES PH 7.0 AND 20% W/V PEG6000
Crystal Properties Matthews coefficient Solvent content 2.2 44.11
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.298 α = 90 b = 83.983 β = 90 c = 157.096 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 PIXEL DECTRIS PILATUS 6M 2013-06-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALBA BEAMLINE XALOC ALBA XALOC
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 2.27 46.3 86.6 0.06 10.2 2.7 25246
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 2.25 2.37 58.4 0.13 5.3 2.3
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 PDB ENTRY 2V77 2.27 78.55 23935 1279 86.63 0.15743 0.15371 0.1535 0.22542 0.2239 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] 2.26 -2.15 -0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.819 r_dihedral_angle_4_deg 16.424 r_dihedral_angle_3_deg 14.47 r_dihedral_angle_1_deg 6.529 r_scangle_it 5.093 r_scbond_it 3.349 r_mcangle_it 2.009 r_rigid_bond_restr 1.747 r_angle_refined_deg 1.672 r_mcbond_it 1.148
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.819 r_dihedral_angle_4_deg 16.424 r_dihedral_angle_3_deg 14.47 r_dihedral_angle_1_deg 6.529 r_scangle_it 5.093 r_scbond_it 3.349 r_mcangle_it 2.009 r_rigid_bond_restr 1.747 r_angle_refined_deg 1.672 r_mcbond_it 1.148 r_chiral_restr 0.105 r_bond_refined_d 0.018 r_gen_planes_refined 0.008 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4865 Nucleic Acid Atoms Solvent Atoms 259 Heterogen Atoms 62
Software Software Software Name Purpose REFMAC refinement XPS data reduction CCP4I data scaling MOLREP phasing