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Crystal structure of a SMT fusion Peptidyl-prolyl cis-trans isomerase with surface mutation D44G from Burkholderia pseudomallei complexed with CJ37
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3UQB PDB entry 3UQB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 295 Internal tracking number 233926b1. Puck VKT6-6, Morpheus well B1. 10% PEG 20,000, 20% PEG MME550, 0.03M Halides (NaF, NaBr, NaI), 0.1M MES/Imidazole pH 6.5, Direct Cryo. BupsA.00130.a.D214, 20.00 mg/ml, CJ37 (EBSI2854), vapor diffusion, sitting drop, temperature 295K
Crystal Properties Matthews coefficient Solvent content 1.91 35.56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 33.63 α = 90.86 b = 35.14 β = 99.52 c = 75.64 γ = 96.24
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 315r 2012-05-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.1 0.9774 ALS 5.0.1
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 1.95 74.56 97.9 0.094 12.27 3.82 24732 24210 -3 25.722
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 1.95 2 97 0.505 2.7
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 PDB entry 3UQB 1.95 37.28 24732 24210 1234 97.93 0.175 0.175 0.172 0.1776 0.224 0.2275 RANDOM 22.48
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 0.34 0.39 0.6 0.13 -0.47
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.273 r_dihedral_angle_4_deg 18.951 r_dihedral_angle_3_deg 13.944 r_dihedral_angle_1_deg 6.752 r_angle_refined_deg 1.551 r_angle_other_deg 0.88 r_chiral_restr 0.083 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 r_bond_other_d 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.273 r_dihedral_angle_4_deg 18.951 r_dihedral_angle_3_deg 13.944 r_dihedral_angle_1_deg 6.752 r_angle_refined_deg 1.551 r_angle_other_deg 0.88 r_chiral_restr 0.083 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2812 Nucleic Acid Atoms Solvent Atoms 287 Heterogen Atoms 42
Software Software Software Name Purpose XSCALE data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction XDS data reduction