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Crystal structure of the CDC42-Collybistin II complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1FOE PDB ENTRY 1FOE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 PEG 8000, Potassium dihydrogen phosphate, NaCl, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K, pH 8.00
Crystal Properties Matthews coefficient Solvent content 2.6 52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.957 α = 90 b = 147.499 β = 90 c = 167.22 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 CCD ADSC QUANTUM 4 2003-08-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X26C NSLS X26C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.15 50 96.1 0.075 22.5 4.7 72590 2 39.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.15 2.23 83.3 0.52 2 3.4
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 1FOE 2.15 47.67 72076 3782 98.2 0.183 0.18 0.185 0.229 0.2313 RANDOM 25.25
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] -0.1 0.44 -0.34
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.631 r_scangle_it 5.52 r_scbond_it 3.326 r_mcangle_it 2.049 r_angle_refined_deg 1.833 r_mcbond_it 1.07 r_angle_other_deg 0.981 r_symmetry_vdw_refined 0.278 r_symmetry_vdw_other 0.275 r_nbd_other 0.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.631 r_scangle_it 5.52 r_scbond_it 3.326 r_mcangle_it 2.049 r_angle_refined_deg 1.833 r_mcbond_it 1.07 r_angle_other_deg 0.981 r_symmetry_vdw_refined 0.278 r_symmetry_vdw_other 0.275 r_nbd_other 0.24 r_nbd_refined 0.231 r_xyhbond_nbd_refined 0.212 r_symmetry_hbond_refined 0.137 r_chiral_restr 0.123 r_nbtor_other 0.09 r_bond_refined_d 0.022 r_gen_planes_other 0.012 r_gen_planes_refined 0.01 r_bond_other_d 0.003 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined 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_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9002 Nucleic Acid Atoms Solvent Atoms 581 Heterogen Atoms 46
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MOLREP phasing REFMAC refinement