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The C2A domain of Rabphilin 3A in complex with PI(4,5)P2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2CHD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293 25mM Hepes, 20mM Ammonuim Sulphate, 25% PEG 4K, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.14 42.55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 37.97 α = 90 b = 38.91 β = 90 c = 88.72 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 PIXEL PSI PILATUS 6M 2012-03-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SOLEIL BEAMLINE PROXIMA 1 SOLEIL PROXIMA 1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.8 44.36 94.2 0.131 0.061 15 2.9 12421 1
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 1.78 1.89 96.9 0.72
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 2CHD 1.8 44.36 12047 635 99.47 0.18612 0.18405 0.1817 0.22604 0.2198 RANDOM 24.048
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] 0.14 -0.1 -0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.006 r_dihedral_angle_3_deg 11.63 r_dihedral_angle_4_deg 7.48 r_long_range_B_refined 6.694 r_long_range_B_other 5.928 r_dihedral_angle_1_deg 5.611 r_scangle_other 2.066 r_mcangle_other 1.929 r_mcangle_it 1.867 r_scbond_it 1.265
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.006 r_dihedral_angle_3_deg 11.63 r_dihedral_angle_4_deg 7.48 r_long_range_B_refined 6.694 r_long_range_B_other 5.928 r_dihedral_angle_1_deg 5.611 r_scangle_other 2.066 r_mcangle_other 1.929 r_mcangle_it 1.867 r_scbond_it 1.265 r_scbond_other 1.253 r_angle_refined_deg 1.2 r_mcbond_it 1.086 r_mcbond_other 1.07 r_angle_other_deg 0.982 r_chiral_restr 0.183 r_bond_refined_d 0.006 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 1019 Nucleic Acid Atoms Solvent Atoms 113 Heterogen Atoms 39
Software Software Software Name Purpose DNA data collection XFIT data reduction REFMAC refinement XDS data reduction SCALA data scaling