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Crystal structure of I14V DHFR mutant complexed with folate and NADP+
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1RX2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 291 0.1 M Tris, pH 8.5, 0.1 M LiCl, 34.2% w/v PEG 6000, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.16 43.18
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.077 α = 90 b = 60.253 β = 95.97 c = 74.179 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 100 CCD NOIR-1 2010-12-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 4.2.2 1.000 ALS 4.2.2
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 1.5 73.78 95.6 0.04 17.3 3.86 47127 1
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 1.5 1.55 89.7 0.166 3.6 3.75
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 1RX2 1.5 30.21 44649 2385 95.37 0.17639 0.17376 0.1831 0.2268 0.2392 RANDOM 22.307
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] 1.06 1.74 -1.21 -0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.966 r_dihedral_angle_4_deg 17.734 r_dihedral_angle_3_deg 12.876 r_long_range_B_refined 8.846 r_dihedral_angle_1_deg 5.949 r_angle_refined_deg 2.446 r_scbond_it 2.202 r_mcangle_it 1.272 r_angle_other_deg 1.025 r_mcbond_it 0.856
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.966 r_dihedral_angle_4_deg 17.734 r_dihedral_angle_3_deg 12.876 r_long_range_B_refined 8.846 r_dihedral_angle_1_deg 5.949 r_angle_refined_deg 2.446 r_scbond_it 2.202 r_mcangle_it 1.272 r_angle_other_deg 1.025 r_mcbond_it 0.856 r_chiral_restr 0.14 r_bond_refined_d 0.023 r_gen_planes_refined 0.013 r_gen_planes_other 0.002 r_bond_other_d 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_mcbond_other r_mcangle_other r_scbond_other r_scangle_it r_scangle_other 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 2533 Nucleic Acid Atoms Solvent Atoms 435 Heterogen Atoms 160
Software Software Software Name Purpose Blu-Ice data collection PHASER phasing REFMAC refinement d*TREK data reduction d*TREK data scaling