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The complex structure of C3cer exoenzyme and GTP bound RhoA (NADH-bound state)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1A2B 1A2B and 3BW8 experimental model PDB 3BW8 1A2B and 3BW8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 277 100 mM MES (pH 6.4), 20% PEG1500
Crystal Properties Matthews coefficient Solvent content 2.28 46.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.424 α = 90 b = 50.424 β = 90 c = 136.667 γ = 120
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 RAXIS VII 2014-09-30 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) 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 2.3 50 99.9 21 5.5 13464
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 1A2B and 3BW8 2.5 45.56 12085 1334 99.76 0.19589 0.1895 0.1894 0.25353 0.252 RANDOM 68.204
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] 0.18 0.09 0.18 -0.58
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.035 r_dihedral_angle_4_deg 23.329 r_dihedral_angle_3_deg 20.005 r_long_range_B_refined 8.909 r_long_range_B_other 8.909 r_scangle_other 5.74 r_dihedral_angle_1_deg 5.267 r_mcangle_it 4.546 r_mcangle_other 4.545 r_scbond_it 3.639
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.035 r_dihedral_angle_4_deg 23.329 r_dihedral_angle_3_deg 20.005 r_long_range_B_refined 8.909 r_long_range_B_other 8.909 r_scangle_other 5.74 r_dihedral_angle_1_deg 5.267 r_mcangle_it 4.546 r_mcangle_other 4.545 r_scbond_it 3.639 r_scbond_other 3.639 r_mcbond_it 2.985 r_mcbond_other 2.983 r_angle_refined_deg 1.259 r_angle_other_deg 1.098 r_chiral_restr 0.051 r_bond_refined_d 0.011 r_gen_planes_refined 0.006 r_bond_other_d 0.003 r_gen_planes_other 0.003 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3074 Nucleic Acid Atoms Solvent Atoms 55 Heterogen Atoms 89
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHENIX phasing