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Crystal structure of LTC4S in complex with AZ13690257
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3PCV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 CaCl2, PEG400, Hepes
Crystal Properties Matthews coefficient Solvent content 4.28 71.28
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 121.591 α = 90 b = 169.385 β = 90 c = 174.478 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 CCD ADSC QUANTUM 4 2013-05-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.976 ESRF ID23-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.35 170 99.2 18.1 6.4 150050
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.35 2.39
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 3PCV 2.35 121.534 149953 7340 99.957 0.209 0.2081 0.2145 0.2297 0.2361 random 57.935
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] -0.673 -0.176 0.849
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.199 r_dihedral_angle_3_deg 19.445 r_dihedral_angle_4_deg 13.811 r_lrange_it 8.15 r_lrange_other 8.141 r_scangle_it 7.062 r_scangle_other 7.062 r_dihedral_angle_1_deg 5.412 r_scbond_it 4.898 r_scbond_other 4.898
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.199 r_dihedral_angle_3_deg 19.445 r_dihedral_angle_4_deg 13.811 r_lrange_it 8.15 r_lrange_other 8.141 r_scangle_it 7.062 r_scangle_other 7.062 r_dihedral_angle_1_deg 5.412 r_scbond_it 4.898 r_scbond_other 4.898 r_mcangle_it 3.829 r_mcangle_other 3.828 r_mcbond_it 2.885 r_mcbond_other 2.883 r_angle_refined_deg 2.244 r_angle_other_deg 2.018 r_nbd_other 0.464 r_symmetry_nbd_refined 0.369 r_nbd_refined 0.223 r_symmetry_xyhbond_nbd_other 0.215 r_nbtor_refined 0.206 r_symmetry_nbd_other 0.18 r_symmetry_xyhbond_nbd_refined 0.177 r_xyhbond_nbd_refined 0.153 r_chiral_restr 0.139 r_symmetry_nbtor_other 0.093 r_ncsr_local_group_49 0.089 r_ncsr_local_group_28 0.085 r_ncsr_local_group_32 0.085 r_ncsr_local_group_61 0.084 r_ncsr_local_group_65 0.083 r_ncsr_local_group_5 0.082 r_ncsr_local_group_11 0.082 r_ncsr_local_group_46 0.079 r_ncsr_local_group_22 0.077 r_ncsr_local_group_35 0.077 r_ncsr_local_group_2 0.076 r_ncsr_local_group_8 0.076 r_ncsr_local_group_50 0.076 r_ncsr_local_group_38 0.075 r_ncsr_local_group_19 0.073 r_ncsr_local_group_25 0.073 r_ncsr_local_group_34 0.073 r_ncsr_local_group_52 0.073 r_ncsr_local_group_53 0.073 r_ncsr_local_group_16 0.072 r_ncsr_local_group_56 0.072 r_ncsr_local_group_58 0.071 r_ncsr_local_group_66 0.071 r_ncsr_local_group_21 0.069 r_ncsr_local_group_40 0.069 r_ncsr_local_group_55 0.069 r_ncsr_local_group_15 0.068 r_ncsr_local_group_64 0.068 r_ncsr_local_group_37 0.067 r_ncsr_local_group_39 0.067 r_ncsr_local_group_47 0.067 r_ncsr_local_group_7 0.066 r_ncsr_local_group_43 0.066 r_ncsr_local_group_45 0.066 r_ncsr_local_group_62 0.065 r_ncsr_local_group_29 0.064 r_ncsr_local_group_12 0.063 r_ncsr_local_group_13 0.063 r_ncsr_local_group_18 0.063 r_ncsr_local_group_1 0.062 r_ncsr_local_group_10 0.062 r_ncsr_local_group_31 0.062 r_ncsr_local_group_60 0.062 r_ncsr_local_group_4 0.06 r_ncsr_local_group_23 0.06 r_ncsr_local_group_42 0.06 r_ncsr_local_group_57 0.056 r_ncsr_local_group_26 0.055 r_ncsr_local_group_9 0.052 r_ncsr_local_group_6 0.051 r_ncsr_local_group_51 0.049 r_ncsr_local_group_14 0.043 r_xyhbond_nbd_other 0.042 r_ncsr_local_group_3 0.041 r_ncsr_local_group_17 0.041 r_ncsr_local_group_24 0.041 r_ncsr_local_group_48 0.041 r_ncsr_local_group_54 0.041 r_ncsr_local_group_41 0.039 r_ncsr_local_group_36 0.037 r_ncsr_local_group_44 0.036 r_ncsr_local_group_33 0.035 r_ncsr_local_group_59 0.033 r_ncsr_local_group_20 0.03 r_ncsr_local_group_30 0.028 r_ncsr_local_group_63 0.028 r_bond_refined_d 0.024 r_bond_other_d 0.016 r_gen_planes_refined 0.016 r_gen_planes_other 0.013 r_ncsr_local_group_27 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 14126 Nucleic Acid Atoms Solvent Atoms 97 Heterogen Atoms 928
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing