☰ Navigation Tabs
Shigella IpgB2 in complex with human RhoA, GDP and Mg2+ (complex B)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3LW8 PDB ENTRY 3LW8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 277 20% (w/v) PEG 3350; protein was treated with EDTA prior to crystallization, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.18 43.56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 75.53 α = 90 b = 95.7 β = 90 c = 102.96 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE RIGAKU 2009-09-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.54
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 2.28 35.13 98.7 0.134 9.81 5.3 34100 -3 31.2
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 2.28 2.34 86.3 0.654 2.1 3.5 2183
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 3LW8 2.28 35.13 -3 34099 1705 98.69 0.209 0.204 0.291 0.2564 RANDOM 16.746
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] 0.01 -0.07 0.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.776 r_dihedral_angle_4_deg 19.012 r_dihedral_angle_3_deg 17.564 r_dihedral_angle_1_deg 5.653 r_scangle_it 3.495 r_scbond_it 2.255 r_angle_refined_deg 1.661 r_mcangle_it 1.275 r_mcbond_it 0.7 r_chiral_restr 0.111
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.776 r_dihedral_angle_4_deg 19.012 r_dihedral_angle_3_deg 17.564 r_dihedral_angle_1_deg 5.653 r_scangle_it 3.495 r_scbond_it 2.255 r_angle_refined_deg 1.661 r_mcangle_it 1.275 r_mcbond_it 0.7 r_chiral_restr 0.111 r_bond_refined_d 0.016 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5770 Nucleic Acid Atoms Solvent Atoms 435 Heterogen Atoms 58
Software Software Software Name Purpose XSCALE data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction