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Crystal Structure Analysis of the copper-reconstituted P19 protein from Campylobacter jejuni at 1.65 A at pH 10.0
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other P6222 incomplete SeMAD model at 2.8 A resolution.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 10 298 25-45% POLYETHYLENE GLYCOL (PEG) 350, 0.1 M CHES (2-(N-CYCLOHEXYLAMINO) ETHANE SULFONIC ACID) BUFFER PH 10.0, CRYO FROZEN WITHOUT ANY ADDITION, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K
Crystal Properties Matthews coefficient Solvent content 2.27 45.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.831 α = 90 b = 72.581 β = 90 c = 78.817 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 315r Rh coated flat mirror, Si(111) side scattering I-beam bent single crystal; asymmetric cut 4.9650 deg. 2009-04-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL7-1 0.979 SSRL BL7-1
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 1.65 19.34 99.5 0.04 20.2 4.7 39217 -3 -3 29.8
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) 1.65 1.74 98.7 0.661 2.4 4.7 5597
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT P6222 incomplete SeMAD model at 2.8 A resolution. 1.65 19.34 37316 1901 99.48 0.14118 0.13887 0.1507 0.18685 0.1962 RANDOM 24.981
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] -0.62 1.29 -0.67
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.774 r_dihedral_angle_4_deg 19.186 r_dihedral_angle_3_deg 14.525 r_scangle_it 8.562 r_dihedral_angle_1_deg 6.66 r_scbond_it 6.554 r_mcangle_it 4.189 r_mcbond_it 2.908 r_rigid_bond_restr 2.193 r_angle_refined_deg 1.523
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.774 r_dihedral_angle_4_deg 19.186 r_dihedral_angle_3_deg 14.525 r_scangle_it 8.562 r_dihedral_angle_1_deg 6.66 r_scbond_it 6.554 r_mcangle_it 4.189 r_mcbond_it 2.908 r_rigid_bond_restr 2.193 r_angle_refined_deg 1.523 r_mcbond_other 0.893 r_angle_other_deg 0.885 r_chiral_restr 0.098 r_bond_refined_d 0.015 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2480 Nucleic Acid Atoms Solvent Atoms 291 Heterogen Atoms 12
Software Software Software Name Purpose Blu-Ice data collection REFMAC refinement XDS data reduction XSCALE data scaling REFMAC phasing