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PikC D50N mutant bound to the 10-DML analog with the 3-(N,N- dimethylamino)propanoate anchoring group
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4B7D PDB ENTRY 4B7D
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.5 2 M AMMONIUM SULFATE, 0.1 M BIS TRIS, PH 5.5
Crystal Properties Matthews coefficient Solvent content 2.13 42.33
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.246 α = 90 b = 92.023 β = 90.48 c = 69.525 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 110 CCD MARRESEARCH MIRRORS 2012-07-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 ALS 8.3.1
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 1.84 92.02 94.4 0.09 8.3 3.9 63160 1.5 23.5
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 1.84 1.94 69.4 0.6 1.5 3.1
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 4B7D 1.84 61.24 59932 3187 94.38 0.16887 0.16586 0.167 0.2242 0.2252 RANDOM 22.611
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] -0.26 -0.3 -1.03 1.29
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.612 r_dihedral_angle_4_deg 19.641 r_dihedral_angle_3_deg 14.383 r_dihedral_angle_1_deg 5.748 r_scangle_it 4.497 r_scbond_it 3.038 r_angle_refined_deg 1.847 r_mcangle_it 1.77 r_mcbond_it 1.068 r_chiral_restr 0.13
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.612 r_dihedral_angle_4_deg 19.641 r_dihedral_angle_3_deg 14.383 r_dihedral_angle_1_deg 5.748 r_scangle_it 4.497 r_scbond_it 3.038 r_angle_refined_deg 1.847 r_mcangle_it 1.77 r_mcbond_it 1.068 r_chiral_restr 0.13 r_bond_refined_d 0.022 r_gen_planes_refined 0.011 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6109 Nucleic Acid Atoms Solvent Atoms 727 Heterogen Atoms 224
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing