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Crystal structure of HIF prolyl hydroxylase EGLN-1 in complex with a biologically active inhibitor
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.4 298 200-300 mM (NH4)2SO4, 100 mM NaOAc pH 4.8-5.4, 22-25% PEG-4000, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.58 52.27
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 111.166 α = 90 b = 111.166 β = 90 c = 40.229 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 100 CCD MARRESEARCH 2005-08-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.0 APS 22-ID
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 1.6 30 96.9 0.019 28.8 4.2 36629 36629 29
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) 1.6 1.7 98.4 0.261 4.3 2.1 6117
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 MIR THROUGHOUT 1.6 30 36503 36503 1814 96.57 0.214 0.21 0.213 0.2357 0.241 0.2596 RANDOM 27.705
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] -0.15 -0.07 -0.15 0.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.553 r_dihedral_angle_3_deg 20.582 r_dihedral_angle_4_deg 17.558 r_dihedral_angle_1_deg 11.27 r_scangle_it 5.77 r_scbond_it 4.638 r_mcangle_it 3.228 r_mcbond_it 2.937 r_angle_refined_deg 1.47 r_mcbond_other 1.079
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.553 r_dihedral_angle_3_deg 20.582 r_dihedral_angle_4_deg 17.558 r_dihedral_angle_1_deg 11.27 r_scangle_it 5.77 r_scbond_it 4.638 r_mcangle_it 3.228 r_mcbond_it 2.937 r_angle_refined_deg 1.47 r_mcbond_other 1.079 r_angle_other_deg 0.695 r_symmetry_hbond_refined 0.442 r_symmetry_vdw_other 0.329 r_nbd_refined 0.267 r_nbd_other 0.248 r_xyhbond_nbd_refined 0.213 r_symmetry_vdw_refined 0.212 r_nbtor_refined 0.197 r_chiral_restr 0.118 r_nbtor_other 0.095 r_bond_refined_d 0.014 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 1845 Nucleic Acid Atoms Solvent Atoms 140 Heterogen Atoms 20
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction MAR345 data collection HKL-2000 data scaling SOLVE phasing