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Orthorhombic Crystal Form of Molybdopterin Synthase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1FM0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 295 1.1 M (NH4)2SO4 and 0.1 M Hepes, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.61 52.48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.578 α = 90 b = 94.86 β = 90 c = 137.44 γ = 90
Symmetry Space Group I 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 Mirrors 2000-10-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X26C 1.1 NSLS X26C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.9 50 98.4 0.081 0.081 16.1 6.4 22162 22162
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 82.1 0.346 2.5
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 (All) 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 1FM0 1.9 50 22062 21024 1138 94.57 0.17667 0.17667 0.17509 0.1869 0.20634 0.2122 RANDOM 18.552
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] 3.58 -2.32 -1.26
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.82 r_scangle_it 2.832 r_scbond_it 1.68 r_angle_refined_deg 1.351 r_mcangle_it 1.213 r_angle_other_deg 1.147 r_mcbond_it 0.639 r_symmetry_vdw_other 0.278 r_nbd_other 0.236 r_nbd_refined 0.194
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.82 r_scangle_it 2.832 r_scbond_it 1.68 r_angle_refined_deg 1.351 r_mcangle_it 1.213 r_angle_other_deg 1.147 r_mcbond_it 0.639 r_symmetry_vdw_other 0.278 r_nbd_other 0.236 r_nbd_refined 0.194 r_xyhbond_nbd_refined 0.175 r_symmetry_hbond_refined 0.167 r_chiral_restr 0.131 r_symmetry_vdw_refined 0.091 r_nbtor_other 0.085 r_bond_refined_d 0.011 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1758 Nucleic Acid Atoms Solvent Atoms 198 Heterogen Atoms 27
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing