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Structure of C351A mutant of Porphyromonas gingivalis peptidylarginine deiminase
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 0.2M AMMONIUM SULFATE, 30% PEG5000MME, 0.1M MES PH 6.5
Crystal Properties Matthews coefficient Solvent content 2.43 49.34
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 101.79 α = 90 b = 84.09 β = 92.64 c = 55.46 γ = 90
Symmetry Space Group C 1 2 1
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 2014-04-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 Diamond I03
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 1.48 64.8 95.3 0.06 10.4 3.4 73831 1 15.2
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 1.48 1.52 93.9 0.54 2.1 3.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 1.48 64.8 70193 3636 95.13 0.12921 0.12737 0.141 0.16444 0.1749 RANDOM 19.703
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] 0.69 -1.44 -0.44 -0.12
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 41.368 r_dihedral_angle_2_deg 34.442 r_sphericity_bonded 17.768 r_dihedral_angle_4_deg 11.153 r_dihedral_angle_3_deg 11.007 r_dihedral_angle_1_deg 6.077 r_mcangle_it 3.312 r_scbond_it 3.206 r_mcbond_other 2.644 r_mcbond_it 2.643
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 41.368 r_dihedral_angle_2_deg 34.442 r_sphericity_bonded 17.768 r_dihedral_angle_4_deg 11.153 r_dihedral_angle_3_deg 11.007 r_dihedral_angle_1_deg 6.077 r_mcangle_it 3.312 r_scbond_it 3.206 r_mcbond_other 2.644 r_mcbond_it 2.643 r_rigid_bond_restr 2.476 r_angle_refined_deg 1.58 r_angle_other_deg 0.987 r_chiral_restr 0.102 r_bond_refined_d 0.013 r_gen_planes_refined 0.008 r_bond_other_d 0.003 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_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3288 Nucleic Acid Atoms Solvent Atoms 462 Heterogen Atoms 90
Software Software Software Name Purpose REFMAC refinement PHASER phasing