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Crystal structure of Tyr p 36.0101
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ACF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 298 0.1 M citric acid pH 3.5, 2 M ammonium sulfate
Crystal Properties Matthews coefficient Solvent content 2.42 49.17
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.364 α = 90 b = 55.364 β = 90 c = 78.814 γ = 120
Symmetry Space Group P 31 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 EIGER X 16M 2022-02-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.0000 APS 22-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 1.15 40 95.3 0.06 0.06 0.063 0.02 0.995 34.8 9.7 47953 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.15 1.17 57.8 0.304 0.304 0.349 0.164 0.919 2.5
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.15 30.462 43128 2044 85.794 0.15 0.1485 0.1481 0.1706 0.1704 15.857
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] -0.175 -0.088 -0.175 0.568
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 14.243 r_dihedral_angle_2_deg 14.129 r_dihedral_angle_3_deg 12.597 r_dihedral_angle_1_deg 6.561 r_rigid_bond_restr 3.802 r_lrange_it 3.635 r_lrange_other 2.814 r_scangle_it 1.934 r_scangle_other 1.916 r_angle_refined_deg 1.698
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 14.243 r_dihedral_angle_2_deg 14.129 r_dihedral_angle_3_deg 12.597 r_dihedral_angle_1_deg 6.561 r_rigid_bond_restr 3.802 r_lrange_it 3.635 r_lrange_other 2.814 r_scangle_it 1.934 r_scangle_other 1.916 r_angle_refined_deg 1.698 r_mcangle_it 1.534 r_mcangle_other 1.533 r_scbond_it 1.457 r_scbond_other 1.446 r_mcbond_it 1.1 r_mcbond_other 1.098 r_angle_other_deg 0.695 r_nbd_other 0.244 r_nbd_refined 0.222 r_symmetry_nbd_refined 0.222 r_symmetry_nbd_other 0.21 r_xyhbond_nbd_refined 0.189 r_nbtor_refined 0.182 r_symmetry_xyhbond_nbd_refined 0.13 r_chiral_restr 0.092 r_symmetry_nbtor_other 0.087 r_bond_refined_d 0.01 r_gen_planes_refined 0.008 r_gen_planes_other 0.005 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 995 Nucleic Acid Atoms Solvent Atoms 186 Heterogen Atoms 20
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling MOLREP phasing