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MIF in complex with 4-[(4-oxo-2-thioxo-1,3-thiazolan-3-yl)methyl]benzonitrile
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1MIF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 295 Tris, ammonium sulfate, isopropanol
Crystal Properties Matthews coefficient Solvent content 2.74 55.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.12 α = 90 b = 68.62 β = 90 c = 88.24 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 315 2007-10-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A 1.0809 NSLS X29A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 54.17 98.9 0.067 5 4.6 66892
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1MIF 1.5 37.11 62804 3351 98.9 0.19487 0.19327 0.22499 0.2596 RANDOM 18.991
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] -0.01 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.977 r_dihedral_angle_4_deg 20.603 r_dihedral_angle_3_deg 11.344 r_dihedral_angle_1_deg 6.181 r_long_range_B_refined 4.763 r_long_range_B_other 4.691 r_scangle_other 3.855 r_scbond_it 2.891 r_scbond_other 2.781 r_angle_refined_deg 2.552
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.977 r_dihedral_angle_4_deg 20.603 r_dihedral_angle_3_deg 11.344 r_dihedral_angle_1_deg 6.181 r_long_range_B_refined 4.763 r_long_range_B_other 4.691 r_scangle_other 3.855 r_scbond_it 2.891 r_scbond_other 2.781 r_angle_refined_deg 2.552 r_mcangle_it 2.496 r_mcangle_other 2.496 r_mcbond_it 1.99 r_mcbond_other 1.988 r_angle_other_deg 1.085 r_chiral_restr 0.145 r_bond_refined_d 0.029 r_gen_planes_refined 0.012 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 2531 Nucleic Acid Atoms Solvent Atoms 239 Heterogen Atoms 28
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing