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Human serum albumin with adamantene carboxylic acid
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6WUW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 295 50 mM potassium phosphate pH 7.5
31 - 34 % PEG3350
Initial hollow crystals were used as seed stock for seeding experiments.
Crystal Properties Matthews coefficient Solvent content 2.2 44.02
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 174.86 α = 90 b = 38.13 β = 106.152 c = 190.97 γ = 90
Symmetry Space Group I 1 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 EIGER2 XE 16M 2023-02-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.9537 Diamond I04
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 1.9 52.97 98 0.11 0.11 0.131 0.063 0.994 5.96 6.5 96690
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 1.93 100 1.122 1.225 0.483 0.633 1.8 6.2
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 1.9 52.97 96690 4876 99.815 0.219 0.2168 0.2177 0.2683 0.2691 39.192
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] 1.351 1.183 -1.094 -0.806
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 15.402 r_dihedral_angle_6_deg 15.3 r_dihedral_angle_2_deg 9.569 r_lrange_other 8.075 r_lrange_it 8.069 r_scangle_it 7.192 r_scangle_other 7.191 r_dihedral_angle_1_deg 5.722 r_mcangle_it 5.003 r_mcangle_other 5.003
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 15.402 r_dihedral_angle_6_deg 15.3 r_dihedral_angle_2_deg 9.569 r_lrange_other 8.075 r_lrange_it 8.069 r_scangle_it 7.192 r_scangle_other 7.191 r_dihedral_angle_1_deg 5.722 r_mcangle_it 5.003 r_mcangle_other 5.003 r_scbond_other 4.961 r_scbond_it 4.96 r_mcbond_it 3.928 r_mcbond_other 3.919 r_angle_refined_deg 1.511 r_angle_other_deg 0.518 r_xyhbond_nbd_refined 0.389 r_nbd_refined 0.231 r_nbd_other 0.191 r_nbtor_refined 0.19 r_symmetry_nbd_other 0.186 r_symmetry_nbd_refined 0.184 r_symmetry_xyhbond_nbd_refined 0.139 r_chiral_restr 0.079 r_ncsr_local_group_1 0.079 r_symmetry_nbtor_other 0.074 r_symmetry_xyhbond_nbd_other 0.052 r_bond_refined_d 0.008 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8792 Nucleic Acid Atoms Solvent Atoms 250 Heterogen Atoms 144
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2 data scaling PHASER phasing