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Crystal structure of PqqC in complex with PQQ and a putative H2O2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1OTV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.8 298 1.4M ammonium sulphate, cacodylate , pH 6.8, VAPOR DIFFUSION, SITTING DROP, temperature 25K
Crystal Properties Matthews coefficient Solvent content 2.51 50.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 73.504 α = 90 b = 118.419 β = 90 c = 69.996 γ = 90
Symmetry Space Group P 21 21 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 ADSC QUANTUM 4 2003-01-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-1 0.978 SSRL BL9-1
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 2.3 70.7 93.5 0.162 8.2 3.1 26011 26011 37.1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.36 89.1 0.423 1.65 2.7 1779
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 1OTV 2.3 70.71 26011 24745 1266 93.4 0.207 0.207 0.205 0.2193 0.24829 0.223 RANDOM 43.702
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] -2.75 -4.65 7.4
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.296 r_mcangle_it 2.159 r_scangle_it 1.854 r_angle_refined_deg 1.649 r_mcbond_it 1.277 r_scbond_it 1.176 r_angle_other_deg 0.82 r_symmetry_vdw_other 0.307 r_nbd_other 0.255 r_nbd_refined 0.238
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.296 r_mcangle_it 2.159 r_scangle_it 1.854 r_angle_refined_deg 1.649 r_mcbond_it 1.277 r_scbond_it 1.176 r_angle_other_deg 0.82 r_symmetry_vdw_other 0.307 r_nbd_other 0.255 r_nbd_refined 0.238 r_symmetry_vdw_refined 0.206 r_xyhbond_nbd_refined 0.196 r_symmetry_hbond_refined 0.196 r_nbtor_other 0.092 r_chiral_restr 0.083 r_bond_refined_d 0.017 r_gen_planes_refined 0.007 r_gen_planes_other 0.004 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4154 Nucleic Acid Atoms Solvent Atoms 129 Heterogen Atoms 52
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling SOLVE phasing