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C4S dCK variant of dCK in complex with L-dC+ADP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1P5Z
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 298 Reservoir containing 0.95-1.5M trisodium citrate dihydrate and 100mM HEPES, pH 7.5., VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.25 45.37
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.8 α = 90 b = 133.35 β = 90 c = 156.04 γ = 90
Symmetry Space Group C 2 2 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 CCD MARMOSAIC 225 mm CCD mirrors 2006-09-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-BM 1.0 APS 22-BM
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 1.7 30 94.3 0.078 15.3 6.9 61155 57715 -3 24.6
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) 1.7 1.8 83.1 0.551 3.1 5.7 8085
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 1P5Z 1.7 30 51646 5763 93.93 0.19592 0.1905 0.19 0.24325 0.2418 RANDOM 29.41
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] 0.14 -0.1 -0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.232 r_dihedral_angle_4_deg 17.405 r_dihedral_angle_3_deg 15.657 r_dihedral_angle_1_deg 5.577 r_scangle_it 4.061 r_scbond_it 2.766 r_mcangle_it 1.914 r_angle_refined_deg 1.78 r_mcbond_it 1.231 r_nbtor_refined 0.313
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.232 r_dihedral_angle_4_deg 17.405 r_dihedral_angle_3_deg 15.657 r_dihedral_angle_1_deg 5.577 r_scangle_it 4.061 r_scbond_it 2.766 r_mcangle_it 1.914 r_angle_refined_deg 1.78 r_mcbond_it 1.231 r_nbtor_refined 0.313 r_symmetry_vdw_refined 0.265 r_nbd_refined 0.208 r_symmetry_hbond_refined 0.193 r_xyhbond_nbd_refined 0.179 r_chiral_restr 0.112 r_bond_refined_d 0.016 r_gen_planes_refined 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3813 Nucleic Acid Atoms Solvent Atoms 289 Heterogen Atoms 86
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling MOLREP phasing