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Structure of CYP121, a Mycobacterial P450, in Complex with Iodopyrazole
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1N40
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.3 277 ammonium sulphate, pH 6.3, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.42 48.87
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.717 α = 90 b = 78.717 β = 90 c = 268.24 γ = 120
Symmetry Space Group P 65 2 2
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 2002-06-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 0.9 EMBL/DESY, HAMBURG X11
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 1.8 20 95.2 0.072 8.1 44862 44862
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.8 1.84 90.6
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1N40 1.8 9.98 42578 42578 2284 100 0.20573 0.20573 0.20511 0.21735 0.254 RANDOM 14.21
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] -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 12.073 r_dihedral_angle_1_deg 5.394 r_scangle_it 4.2 r_scbond_it 2.605 r_angle_refined_deg 1.865 r_angle_other_deg 1.603 r_mcangle_it 1.437 r_mcbond_it 0.821 r_symmetry_vdw_other 0.301 r_nbd_other 0.268
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 12.073 r_dihedral_angle_1_deg 5.394 r_scangle_it 4.2 r_scbond_it 2.605 r_angle_refined_deg 1.865 r_angle_other_deg 1.603 r_mcangle_it 1.437 r_mcbond_it 0.821 r_symmetry_vdw_other 0.301 r_nbd_other 0.268 r_symmetry_hbond_refined 0.228 r_nbd_refined 0.215 r_symmetry_vdw_refined 0.193 r_xyhbond_nbd_refined 0.161 r_chiral_restr 0.11 r_nbtor_other 0.072 r_bond_refined_d 0.022 r_gen_planes_refined 0.008 r_bond_other_d 0.004 r_gen_planes_other 0.004 r_xyhbond_nbd_other r_symmetry_hbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2946 Nucleic Acid Atoms Solvent Atoms 539 Heterogen Atoms 49
Software Software Software Name Purpose HKL-2000 data collection SCALEPACK data scaling AMoRE phasing REFMAC refinement HKL-2000 data reduction