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Crystal Structure of E84Q mutant of CntL in complex with SAM
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7C7M
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291 0.3 M caesium acetate, 20 % w/v PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.04 39.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.816 α = 90 b = 133.21 β = 90 c = 135.278 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 PIXEL RIGAKU HyPix-6000HE 2019-07-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.540562
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 2.7 22.79 99.3 0.088 32.8 4.3 14688
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 2.7 2.8 99.7 0.407
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 7C7M 2.75 22.79 13223 680 99.36 0.26033 0.25894 0.262 0.28632 0.287 RANDOM 42.961
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] 3.12 -0.53 -2.58
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.353 r_dihedral_angle_4_deg 17.164 r_dihedral_angle_3_deg 15.646 r_dihedral_angle_1_deg 5.155 r_long_range_B_refined 1.686 r_long_range_B_other 1.686 r_angle_refined_deg 0.767 r_angle_other_deg 0.694 r_scangle_other 0.199 r_mcangle_it 0.154
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.353 r_dihedral_angle_4_deg 17.164 r_dihedral_angle_3_deg 15.646 r_dihedral_angle_1_deg 5.155 r_long_range_B_refined 1.686 r_long_range_B_other 1.686 r_angle_refined_deg 0.767 r_angle_other_deg 0.694 r_scangle_other 0.199 r_mcangle_it 0.154 r_mcangle_other 0.154 r_scbond_it 0.111 r_scbond_other 0.11 r_mcbond_it 0.086 r_mcbond_other 0.086 r_chiral_restr 0.032 r_bond_refined_d 0.003 r_gen_planes_refined 0.002 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3506 Nucleic Acid Atoms Solvent Atoms 41 Heterogen Atoms 56
Software Software Software Name Purpose REFMAC refinement CrysalisPro data reduction CrysalisPro data scaling MOLREP phasing