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Crystal structure of DctP7, a Bordetella pertussis extracytoplasmic solute receptor binding pyroglutamic acid
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4 277 3.8M Potassium Acetate, 0.1M Sodium Citrate, pH 4.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.11 60.46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.84 α = 90 b = 149.75 β = 90 c = 169.58 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 2006-03-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.97935 ESRF ID23-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.95 112.51 111077
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.95 2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SAD THROUGHOUT 1.95 112.51 111007 5579 91.75 0.169 0.168 0.1697 0.201 0.2029 RANDOM 35.864
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] 0.07 -0.04 -0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.023 r_dihedral_angle_4_deg 21.4 r_dihedral_angle_3_deg 16.295 r_dihedral_angle_1_deg 6.023 r_angle_refined_deg 1.465 r_angle_other_deg 0.59 r_nbtor_refined 0.3 r_nbtor_other 0.278 r_nbd_refined 0.224 r_xyhbond_nbd_refined 0.206
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.023 r_dihedral_angle_4_deg 21.4 r_dihedral_angle_3_deg 16.295 r_dihedral_angle_1_deg 6.023 r_angle_refined_deg 1.465 r_angle_other_deg 0.59 r_nbtor_refined 0.3 r_nbtor_other 0.278 r_nbd_refined 0.224 r_xyhbond_nbd_refined 0.206 r_nbd_other 0.198 r_chiral_restr 0.104 r_bond_refined_d 0.016 r_gen_planes_refined 0.005 r_bond_other_d 0.003 r_symmetry_vdw_refined
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9232 Nucleic Acid Atoms Solvent Atoms 754 Heterogen Atoms 36
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction DNA data collection XDS data reduction XSCALE data scaling SHARP phasing