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Shigella IpgB2 in complex with human RhoA, GDP and Mg2+ (complex A)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1S1C PDB ENTRY 1S1C, partially refined structure of free IpgB2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 277 20% (w/v) PEG 3350, pH 7.5, vapor diffusion, hanging drop, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.37 48.09
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.59 α = 90 b = 101.6 β = 96.43 c = 97.03 γ = 90
Symmetry Space Group P 1 21 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 MARMOSAIC 225 mm CCD 2009-07-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 0.873 ESRF ID23-2
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 1.85 48.21 98.4 0.052 15.11 3.5 133487 -3 26.4
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 1.85 1.9 97.8 0.492 2.5 2.6 9777
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 PDB ENTRY 1S1C, partially refined structure of free IpgB2 1.85 48.2 133481 6674 98.42 0.18 0.177 0.1878 0.233 0.2413 RANDOM 21.609
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] -0.45 -0.29 1.47 -1.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.973 r_dihedral_angle_4_deg 17.979 r_dihedral_angle_3_deg 15.15 r_dihedral_angle_1_deg 5.217 r_scangle_it 3.45 r_scbond_it 2.153 r_angle_refined_deg 1.423 r_mcangle_it 1.361 r_mcbond_it 0.777 r_chiral_restr 0.101
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.973 r_dihedral_angle_4_deg 17.979 r_dihedral_angle_3_deg 15.15 r_dihedral_angle_1_deg 5.217 r_scangle_it 3.45 r_scbond_it 2.153 r_angle_refined_deg 1.423 r_mcangle_it 1.361 r_mcbond_it 0.777 r_chiral_restr 0.101 r_bond_refined_d 0.014 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11613 Nucleic Acid Atoms Solvent Atoms 1766 Heterogen Atoms 116
Software Software Software Name Purpose XSCALE data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction