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Structure of the mixed-function P450 MycG in complex with mycinamicin V in P21 space group
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2Y4H PDB ENTRY 2Y4H
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 296 7% PEG 4000, 0.025 M MG ACETATE, 23 DEGREES C, pH 7.0
Crystal Properties Matthews coefficient Solvent content 2.36 48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.752 α = 90 b = 57.428 β = 113.47 c = 101.929 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 110 CCD ADSC QUANTUM 315r MIRRORS 2009-07-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 ALS 8.3.1
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 1.61 93.5 70.4 0.04 16.2 3.5 79430 1.5 20.4
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 1.61 1.7 11.1 0.3 2.2 1.9
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 PDB ENTRY 2Y4H 1.62 75.91 75373 4038 70.44 0.1183 0.1146 0.1169 0.18821 0.1885 RANDOM 18.569
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] 0.38 -0.17 0.13 -0.65
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.054 r_dihedral_angle_4_deg 19.042 r_dihedral_angle_3_deg 13.429 r_scangle_it 6.378 r_dihedral_angle_1_deg 5.672 r_scbond_it 4.357 r_mcangle_it 2.653 r_rigid_bond_restr 2.366 r_angle_refined_deg 1.904 r_mcbond_it 1.702
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.054 r_dihedral_angle_4_deg 19.042 r_dihedral_angle_3_deg 13.429 r_scangle_it 6.378 r_dihedral_angle_1_deg 5.672 r_scbond_it 4.357 r_mcangle_it 2.653 r_rigid_bond_restr 2.366 r_angle_refined_deg 1.904 r_mcbond_it 1.702 r_chiral_restr 0.122 r_bond_refined_d 0.023 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_other r_long_range_B_refined r_long_range_B_other r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6233 Nucleic Acid Atoms Solvent Atoms 1137 Heterogen Atoms 265
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing