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Crystal structure of IpgC from Shigella flexneri
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 291 0.1M ADA, 1M ammonium sulfate, pH6.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 4.2 70.68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 115.15 α = 90 b = 115.15 β = 90 c = 75.46 γ = 120
Symmetry Space Group P 31 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 100 CCD ADSC QUANTUM 315r 2007-05-14 M SINGLE WAVELENGTH 2 1 x-ray 100 CCD MAR CCD 165 mm 2007-04-25 M MAD 1,2 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.97625 ESRF ID23-1 2 SYNCHROTRON BESSY BEAMLINE 14.2 0.97965, 0.97987, 0.97626, 0.98793 BESSY 14.2
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 1,2 2.15 37.69 99.735 0.125 10.12 9.1 31712 31628 -3 55.242
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) 1,2 2.15 2.28 98.7 0.548 2.1 3.6 4963
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 MAD THROUGHOUT 2.15 37.69 31712 31628 1577 99.735 0.192 0.191 0.1932 0.214 0.2165 RANDOM 46.163
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] 0.16 0.08 0.16 -0.23
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.286 r_dihedral_angle_4_deg 21.027 r_dihedral_angle_3_deg 16.643 r_scangle_it 6.333 r_dihedral_angle_1_deg 5.073 r_scbond_it 3.87 r_mcangle_it 2.365 r_angle_refined_deg 1.938 r_mcbond_it 1.252 r_chiral_restr 0.126
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.286 r_dihedral_angle_4_deg 21.027 r_dihedral_angle_3_deg 16.643 r_scangle_it 6.333 r_dihedral_angle_1_deg 5.073 r_scbond_it 3.87 r_mcangle_it 2.365 r_angle_refined_deg 1.938 r_mcbond_it 1.252 r_chiral_restr 0.126 r_bond_refined_d 0.024 r_gen_planes_refined 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2308 Nucleic Acid Atoms Solvent Atoms 86 Heterogen Atoms 53
Software Software Software Name Purpose XSCALE data scaling SHARP phasing SOLOMON phasing REFMAC refinement PDB_EXTRACT data extraction XDS data scaling XDS data reduction