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The human methylenetetrahydrofolate dehydrogenase/cyclohydrolase (FolD) complexed with NADP and inhibitor LY249543
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DIA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.2 293 PEG 3350, GLYCEROL, SODIUM CITRATE, AMMONIUM ACETATE, pH 5.2, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 20K
Crystal Properties Matthews coefficient Solvent content 2.2 44.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.871 α = 90 b = 136.396 β = 90 c = 61.649 γ = 90
Symmetry Space Group P 21 21 21
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 4 1999-03-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X8C 1.0 NSLS X8C
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 2.2 15 99.3 0.044 5 4 29674 -3 25
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 2.2 2.23 95.5 0.146 4
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 FOURIER SYNTHESIS THROUGHOUT 1DIA 2.2 14.86 26078 2884 97.21 0.17884 0.17349 0.1818 0.22671 0.2316 RANDOM 25.614
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] -0.09 0.48 -0.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.815 r_dihedral_angle_4_deg 15.668 r_dihedral_angle_3_deg 14.212 r_long_range_B_refined 6.467 r_long_range_B_other 6.459 r_dihedral_angle_1_deg 6.069 r_scangle_other 4.321 r_mcangle_it 2.935 r_mcangle_other 2.935 r_scbond_other 2.771
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.815 r_dihedral_angle_4_deg 15.668 r_dihedral_angle_3_deg 14.212 r_long_range_B_refined 6.467 r_long_range_B_other 6.459 r_dihedral_angle_1_deg 6.069 r_scangle_other 4.321 r_mcangle_it 2.935 r_mcangle_other 2.935 r_scbond_other 2.771 r_scbond_it 2.77 r_mcbond_it 1.971 r_mcbond_other 1.969 r_angle_refined_deg 1.728 r_angle_other_deg 1.017 r_chiral_restr 0.106 r_bond_refined_d 0.015 r_gen_planes_refined 0.008 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4412 Nucleic Acid Atoms Solvent Atoms 195 Heterogen Atoms 160
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling REFMAC phasing