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Crystal Structure of AvrPtoB (436-553)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.8 298 1.37 M-1.39 M sodium citrate, 100 mM HEPES, 2 mM DTT, pH 6.8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.51 51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.863 α = 90 b = 61.863 β = 90 c = 60.419 γ = 120
Symmetry Space Group P 32 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 103 CCD MARRESEARCH 2004-10-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X9A 0.979 NSLS X9A
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 1.7 50 99.9 0.03 5.6 15065
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 1.7 1.76 99.9 0.674 5.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 1.8 50 12686 12049 637 99.42 0.24344 0.24215 0.249 0.26669 0.2665 RANDOM 44.173
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] 1.92 0.96 1.92 -2.88
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.213 r_dihedral_angle_3_deg 14.338 r_dihedral_angle_1_deg 8.912 r_dihedral_angle_4_deg 6.097 r_scangle_it 3.525 r_scbond_it 2.45 r_angle_refined_deg 1.794 r_mcangle_it 1.37 r_mcbond_it 1.147 r_angle_other_deg 0.894
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.213 r_dihedral_angle_3_deg 14.338 r_dihedral_angle_1_deg 8.912 r_dihedral_angle_4_deg 6.097 r_scangle_it 3.525 r_scbond_it 2.45 r_angle_refined_deg 1.794 r_mcangle_it 1.37 r_mcbond_it 1.147 r_angle_other_deg 0.894 r_mcbond_other 0.293 r_nbd_refined 0.239 r_symmetry_vdw_other 0.203 r_nbd_other 0.196 r_nbtor_refined 0.184 r_xyhbond_nbd_refined 0.178 r_symmetry_hbond_refined 0.17 r_chiral_restr 0.122 r_nbtor_other 0.094 r_symmetry_vdw_refined 0.092 r_bond_refined_d 0.019 r_gen_planes_refined 0.008 r_bond_other_d 0.003 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 801 Nucleic Acid Atoms Solvent Atoms 51 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SOLVE phasing RESOLVE phasing REFMAC refinement PDB_EXTRACT data extraction