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Crystal structure of the ARF1:ARHGAP21-ArfBD complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1J2I PDB ENTRY 1J2I
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.8 15 % PEG5000 MME, 100 MM IMIDAZOLE PH 6.8, 150 MM NH4.SO4 OR LI2SO4, 10 MM MGCL2, 0.5 % DIOXANE, 5 % ETHYLENE GLYCOL
Crystal Properties Matthews coefficient Solvent content 3.32 62.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.636 α = 90 b = 132.136 β = 90.01 c = 146.283 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 MARRESEARCH 2006-03-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-3 ESRF ID14-3
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 2.1 50 98.4 0.09 14.6 3.8 155860 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 2.1 2.21 95.5 0.37 3.8
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 1J2I 2.1 40 180555 19925 97.3 0.209 0.205 0.1957 0.243 0.2297 RANDOM 23.45
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] 0.54 0.06 0.7 -1.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.57 r_dihedral_angle_4_deg 20.302 r_dihedral_angle_3_deg 13.656 r_dihedral_angle_1_deg 5.884 r_scangle_it 2.244 r_scbond_it 1.464 r_angle_refined_deg 1.203 r_mcangle_it 1.073 r_mcbond_it 0.637 r_nbtor_refined 0.298
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.57 r_dihedral_angle_4_deg 20.302 r_dihedral_angle_3_deg 13.656 r_dihedral_angle_1_deg 5.884 r_scangle_it 2.244 r_scbond_it 1.464 r_angle_refined_deg 1.203 r_mcangle_it 1.073 r_mcbond_it 0.637 r_nbtor_refined 0.298 r_symmetry_vdw_refined 0.207 r_nbd_refined 0.19 r_symmetry_hbond_refined 0.15 r_xyhbond_nbd_refined 0.142 r_chiral_restr 0.082 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13577 Nucleic Acid Atoms Solvent Atoms 1656 Heterogen Atoms 258
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing