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Crystal structure of I14A 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 291 0.2 M Lithium acetate, 20% w/v PEG 3350, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.15 42.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.115 α = 90 b = 59.515 β = 95.53 c = 74.227 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 2011-06-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 4.2.2 0.855 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 1.35 73.88 99.7 0.031 21.22 3.7 66630 66630 -3
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 1.35 1.42 100 0.565 2.3 3.7
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 1.35 30.48 63228 3379 99.72 0.13617 0.13372 0.1333 0.18134 0.1812 RANDOM 22.511
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] 0.23 -0.62 -0.52 0.34
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.701 r_sphericity_free 29.05 r_dihedral_angle_4_deg 20.065 r_sphericity_bonded 19.262 r_dihedral_angle_3_deg 13.135 r_rigid_bond_restr 5.924 r_dihedral_angle_1_deg 5.746 r_scangle_it 5.023 r_scbond_it 3.467 r_mcangle_it 2.736
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.701 r_sphericity_free 29.05 r_dihedral_angle_4_deg 20.065 r_sphericity_bonded 19.262 r_dihedral_angle_3_deg 13.135 r_rigid_bond_restr 5.924 r_dihedral_angle_1_deg 5.746 r_scangle_it 5.023 r_scbond_it 3.467 r_mcangle_it 2.736 r_angle_refined_deg 2.159 r_mcbond_it 1.677 r_angle_other_deg 1.198 r_chiral_restr 0.13 r_bond_refined_d 0.021 r_gen_planes_refined 0.012 r_gen_planes_other 0.007 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_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2528 Nucleic Acid Atoms Solvent Atoms 334 Heterogen Atoms 143
Software Software Software Name Purpose Blu-Ice data collection PHASER phasing REFMAC refinement XDS data reduction SCALA data scaling