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Crystal structure of trypsin-famotidine complex at 2.10 Angstroms resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1CE5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.8 291 0.1-0.4 M Li2SO4, 16% PEG-3350 and 0.1 M HEPES at pH of 7.8
Crystal Properties Matthews coefficient Solvent content 1.95 36.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.449 α = 90 b = 54.449 β = 90 c = 106.284 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 Bruker PHOTON II 2022-11-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SEALED TUBE BRUKER D8 QUEST 1.5406
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 2.1 19.64 99.9 0.032 0.99 20.6 1.8 11143
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.1 2.16 0.096 0.89 7.7
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 1CE5 2.1 19.64 10604 538 99.81 0.18313 0.17953 0.19 0.25087 0.2525 RANDOM 13.771
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] -0.42 -0.21 -0.42 1.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.214 r_dihedral_angle_4_deg 22.43 r_dihedral_angle_3_deg 16.308 r_dihedral_angle_1_deg 7.78 r_long_range_B_refined 4.757 r_long_range_B_other 4.704 r_scangle_other 1.913 r_angle_refined_deg 1.541 r_mcangle_it 1.459 r_mcangle_other 1.458
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.214 r_dihedral_angle_4_deg 22.43 r_dihedral_angle_3_deg 16.308 r_dihedral_angle_1_deg 7.78 r_long_range_B_refined 4.757 r_long_range_B_other 4.704 r_scangle_other 1.913 r_angle_refined_deg 1.541 r_mcangle_it 1.459 r_mcangle_other 1.458 r_angle_other_deg 1.291 r_scbond_other 1.154 r_scbond_it 1.152 r_mcbond_it 0.865 r_mcbond_other 0.864 r_chiral_restr 0.061 r_bond_refined_d 0.008 r_gen_planes_refined 0.006 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 1629 Nucleic Acid Atoms Solvent Atoms 147 Heterogen Atoms 23
Software Software Software Name Purpose REFMAC refinement PROTEUM PLUS data reduction Aimless data scaling MOLREP phasing