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Crystal Structure Of AKR1B10 Complexed With NADP+ And Tolrestat
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1FRB PDB ENTRY 1FRB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 9 293 PEG 6000, pH 9.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.03 38.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.113 α = 90 b = 89.113 β = 90 c = 78.433 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 298 CCD ADSC QUANTUM 4r 2005-05-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 1.00632 ESRF ID14-4
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 1.25 55.05 97.7 0.056 5 5 92151 92151 30.4
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) 1.25 1.3 95 0.4 2 3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1FRB 1.25 20 92151 92151 4867 99.49 0.1313 0.13098 0.12962 0.1299 0.15619 0.1565 RANDOM 14.292
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] 0.09 0.05 0.09 -0.14
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.273 r_dihedral_angle_4_deg 15.449 r_dihedral_angle_3_deg 13.309 r_sphericity_free 12.875 r_dihedral_angle_1_deg 7.76 r_sphericity_bonded 5.696 r_scangle_it 4.931 r_scbond_it 3.978 r_mcangle_it 2.731 r_mcbond_it 2.451
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.273 r_dihedral_angle_4_deg 15.449 r_dihedral_angle_3_deg 13.309 r_sphericity_free 12.875 r_dihedral_angle_1_deg 7.76 r_sphericity_bonded 5.696 r_scangle_it 4.931 r_scbond_it 3.978 r_mcangle_it 2.731 r_mcbond_it 2.451 r_angle_refined_deg 2.094 r_rigid_bond_restr 2.054 r_mcbond_other 1.116 r_angle_other_deg 1.007 r_symmetry_vdw_refined 0.338 r_nbd_refined 0.262 r_symmetry_vdw_other 0.259 r_nbd_other 0.204 r_symmetry_hbond_refined 0.194 r_nbtor_refined 0.192 r_xyhbond_nbd_refined 0.183 r_chiral_restr 0.126 r_nbtor_other 0.092 r_bond_refined_d 0.022 r_gen_planes_refined 0.012 r_bond_other_d 0.003 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2665 Nucleic Acid Atoms Solvent Atoms 411 Heterogen Atoms 72
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling MOLREP phasing