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Cytochrome-P450 XplA heme domain P21
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2Z3T PDB ENTRY 2Z3T
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 0.2 M BI-TRIS PROPANE, PH 6.5; 22% PEG 3350; 0.02M POTASSIUM PHOSPHATE; 32 MG ML -1 PROTEIN
Crystal Properties Matthews coefficient Solvent content 2.36 48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.129 α = 90 b = 123.019 β = 98.54 c = 64.608 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 120 CCD MARRESEARCH 2006-04-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 ESRF BM14
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 1.9 63.89 91.5 0.06 10 1.8 57099 2
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 1.9 1.95 41.9 0.35 6 1.2
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 2Z3T 1.9 63.89 57099 3104 91.5 0.169 0.167 0.2229 0.214 0.2552 RANDOM 25.17
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] 0.93 0.41 -0.95 0.14
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.115 r_dihedral_angle_4_deg 20.879 r_dihedral_angle_3_deg 14 r_dihedral_angle_1_deg 6.429 r_scangle_it 4.898 r_scbond_it 3.215 r_angle_refined_deg 1.917 r_mcangle_it 1.889 r_mcbond_it 1.126 r_chiral_restr 0.134
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.115 r_dihedral_angle_4_deg 20.879 r_dihedral_angle_3_deg 14 r_dihedral_angle_1_deg 6.429 r_scangle_it 4.898 r_scbond_it 3.215 r_angle_refined_deg 1.917 r_mcangle_it 1.889 r_mcbond_it 1.126 r_chiral_restr 0.134 r_bond_refined_d 0.025 r_gen_planes_refined 0.011 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6102 Nucleic Acid Atoms Solvent Atoms 486 Heterogen Atoms 86
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling MOLREP phasing