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Crystal structure of the RP2-Arl3 complex bound to GppNHp
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1KSG 1KSG, 2BX6 experimental model PDB 2BX6 1KSG, 2BX6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293 20% PEG 3350, 0.2 M potassium chloride, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.45 49.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 73.86 α = 90 b = 78.49 β = 90 c = 98.38 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 MARMOSAIC 225 mm CCD 2005-11-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 0.9792 SLS X10SA
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 2.6 19.81 99.6 0.082 16.12 5.9 18118 18118 3.8 36.068
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 2.6 2.7 99.9 0.435 3.75 4.6 1919
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 1KSG, 2BX6 2.6 19.81 16304 1812 100 0.22029 0.21466 0.2184 0.27078 0.2701 RANDOM 36.051
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] -0.58 -1.57 2.15
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.79 r_dihedral_angle_3_deg 20.283 r_dihedral_angle_4_deg 19.503 r_dihedral_angle_1_deg 6.448 r_scangle_it 2.211 r_scbond_it 1.324 r_angle_refined_deg 1.293 r_mcangle_it 1.008 r_mcbond_it 0.553 r_nbtor_refined 0.311
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.79 r_dihedral_angle_3_deg 20.283 r_dihedral_angle_4_deg 19.503 r_dihedral_angle_1_deg 6.448 r_scangle_it 2.211 r_scbond_it 1.324 r_angle_refined_deg 1.293 r_mcangle_it 1.008 r_mcbond_it 0.553 r_nbtor_refined 0.311 r_symmetry_hbond_refined 0.296 r_nbd_refined 0.232 r_symmetry_vdw_refined 0.21 r_xyhbond_nbd_refined 0.157 r_metal_ion_refined 0.149 r_chiral_restr 0.082 r_bond_refined_d 0.01 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3744 Nucleic Acid Atoms Solvent Atoms 48 Heterogen Atoms 33
Software Software Software Name Purpose REFMAC refinement XDS data scaling XDS data reduction XSCALE data scaling MOLREP phasing