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Two-site competitive inhibition in dehaloperoxidase-hemoglobin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2QFK PDB ENTRY 2QFK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.9 277 0.2 M AMMONIUM SULFATE, 32% PEG 4000, PH 5.9, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 277K
Crystal Properties Matthews coefficient Solvent content 2.16 43.09
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.201 α = 90 b = 67.21 β = 90 c = 68.724 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 2008-04-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-BM 1.0000 APS 22-BM
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 1.85 35 94.2 0.101 7.95 3.4 22277 21082 2 16.4
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) 1.85 1.9 92.9 0.322 3.35 3.4 1573
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) Number Reflections (All) 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 PDB ENTRY 2QFK 1.85 35 2 22277 21082 1195 94.2 0.19 0.187 0.1891 0.243 0.2432 RANDOM 19.54
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] 0.77 -0.57 -0.2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.351 r_dihedral_angle_4_deg 19.339 r_dihedral_angle_3_deg 16.089 r_dihedral_angle_1_deg 4.095 r_sphericity_free 2.859 r_rigid_bond_restr 2.297 r_scbond_it 2.104 r_scangle_it 2.072 r_sphericity_bonded 1.342 r_angle_refined_deg 1.157
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.351 r_dihedral_angle_4_deg 19.339 r_dihedral_angle_3_deg 16.089 r_dihedral_angle_1_deg 4.095 r_sphericity_free 2.859 r_rigid_bond_restr 2.297 r_scbond_it 2.104 r_scangle_it 2.072 r_sphericity_bonded 1.342 r_angle_refined_deg 1.157 r_mcangle_it 0.855 r_mcbond_it 0.54 r_nbtor_refined 0.3 r_nbd_refined 0.195 r_symmetry_vdw_refined 0.192 r_symmetry_hbond_refined 0.157 r_xyhbond_nbd_refined 0.139 r_chiral_restr 0.084 r_bond_refined_d 0.008 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2182 Nucleic Acid Atoms Solvent Atoms 213 Heterogen Atoms 117
Software Software Software Name Purpose HKL-2000 data collection PHASER phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling