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Structure of caprine serum albumin in complex with 3,5-diiodosalicylic acid
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5ORI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 283 Jeffamine ED2001, Citric buffer pH 5, 0.01M BaCl2
Crystal Properties Matthews coefficient Solvent content 2.25 45.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.42 α = 90 b = 66.06 β = 90 c = 213.59 γ = 90
Symmetry Space Group P 21 21 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 CCD MARMOSAIC 225 mm CCD mirrors 2014-09-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.2 0.9184 BESSY 14.2
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 1.78 50 98.7 0.059 0.999 20.16 7.12 57982
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 1.78 1.88 95.4 0.951 0.634 2.3 6.65
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 5ORI 1.78 50.01 56794 1188 98.74 0.17995 0.17866 0.1797 0.24075 0.2411 RANDOM 41.856
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] -0.89 1.38 -0.49
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.077 r_sphericity_free 22.323 r_dihedral_angle_4_deg 19.165 r_dihedral_angle_3_deg 16.478 r_sphericity_bonded 11.695 r_rigid_bond_restr 8.389 r_dihedral_angle_1_deg 6.094 r_long_range_B_refined 5.015 r_scbond_it 4.66 r_mcangle_it 3.916
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.077 r_sphericity_free 22.323 r_dihedral_angle_4_deg 19.165 r_dihedral_angle_3_deg 16.478 r_sphericity_bonded 11.695 r_rigid_bond_restr 8.389 r_dihedral_angle_1_deg 6.094 r_long_range_B_refined 5.015 r_scbond_it 4.66 r_mcangle_it 3.916 r_mcbond_it 3.377 r_angle_refined_deg 1.926 r_chiral_restr 0.136 r_bond_refined_d 0.019 r_gen_planes_refined 0.01 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_it r_scangle_other r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4643 Nucleic Acid Atoms Solvent Atoms 488 Heterogen Atoms 112
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling MOLREP phasing