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X-ray structure dihydrofolate reductase/thymidylate synthase from babesia bovis at 2.35A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1QZF pdb entry 1QZF modified by the ccp4 program chainsaw
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROFLUDIC MICROBATCH IN A CRYSTAL CARD 9.5 290 WIZARD SCREEN A1: 20% PEG 8000, 100MM CHES PH 9.5; BABOA.01191.A AT 11.3MG/ML, MICROFLUDIC MICROBATCH IN A CRYSTAL CARD, TEMPERATURE 290K
Crystal Properties Matthews coefficient Solvent content 2.6 53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.54 α = 119 b = 83.48 β = 97.99 c = 84.19 γ = 100.69
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 ADSC QUANTUM 315 2009-04-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.2 1.0000 ALS 5.0.2
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 2.35 72.2 96.8 0.099 9.64 2.9 47995 47995 -3 -3 36.4
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 2.35 2.41 96.7 0.551 2.2 2.9
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 (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 1QZF modified by the ccp4 program chainsaw 2.35 19.69 47995 47995 2440 97.2 0.205 0.202 0.2046 0.251 0.2496 RANDOM 23.29
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] -0.05 1.04 0.34 1.26 1.4 0.62
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.08 r_dihedral_angle_4_deg 21.604 r_dihedral_angle_3_deg 14.502 r_dihedral_angle_1_deg 6.815 r_scangle_it 2.056 r_scbond_it 1.26 r_angle_refined_deg 1.191 r_mcangle_it 0.938 r_angle_other_deg 0.843 r_mcbond_it 0.5
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.08 r_dihedral_angle_4_deg 21.604 r_dihedral_angle_3_deg 14.502 r_dihedral_angle_1_deg 6.815 r_scangle_it 2.056 r_scbond_it 1.26 r_angle_refined_deg 1.191 r_mcangle_it 0.938 r_angle_other_deg 0.843 r_mcbond_it 0.5 r_mcbond_other 0.092 r_chiral_restr 0.071 r_bond_refined_d 0.009 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7607 Nucleic Acid Atoms Solvent Atoms 253 Heterogen Atoms 2
Software Software Software Name Purpose BOS data collection PHASER phasing REFMAC refinement XDS data reduction XSCALE data scaling