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DHFR R-67 complexed with NADP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2RH2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 277 50% 2-methyl-2,4-pentanediol (MPD), 100 mM Tris, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.2 44.18
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.52 α = 90 b = 67.52 β = 90 c = 52.07 γ = 90
Symmetry Space Group I 41 2 2
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 RIGAKU SATURN 92 Varimax HF, Confocal mirrors 2007-07-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418
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 50 97.8 0.115 13 6.4 4883 4883 -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 1.9 1.97 83.7 0.219 4.5 4 396
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 2RH2 1.9 22.86 4880 4623 257 97.95 0.14403 0.14096 0.1361 0.19991 0.2014 Random, preserved from 2RH2 15.783
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] 0.08 0.08 -0.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.274 r_dihedral_angle_4_deg 19.382 r_dihedral_angle_3_deg 13.513 r_dihedral_angle_1_deg 6.559 r_scangle_it 4.032 r_scbond_it 2.913 r_angle_refined_deg 2.295 r_mcangle_it 2.185 r_mcbond_it 1.562 r_symmetry_hbond_refined 0.426
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.274 r_dihedral_angle_4_deg 19.382 r_dihedral_angle_3_deg 13.513 r_dihedral_angle_1_deg 6.559 r_scangle_it 4.032 r_scbond_it 2.913 r_angle_refined_deg 2.295 r_mcangle_it 2.185 r_mcbond_it 1.562 r_symmetry_hbond_refined 0.426 r_symmetry_vdw_refined 0.382 r_nbtor_refined 0.329 r_xyhbond_nbd_refined 0.314 r_nbd_refined 0.25 r_chiral_restr 0.167 r_bond_refined_d 0.023 r_gen_planes_refined 0.011 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 441 Nucleic Acid Atoms Solvent Atoms 86 Heterogen Atoms 68
Software Software Software Name Purpose REFMAC refinement StructureStudio data collection HKL-2000 data reduction HKL-2000 data scaling CNS phasing