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Crystal structure of CERT START domain in complex with C18-ceramide (P1)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP
Crystal Properties Matthews coefficient Solvent content 2.32 46.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.459 α = 77.54 b = 50.134 β = 70.96 c = 62.652 γ = 81.85
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 210 2004-12-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NW12A 0.97919 Photon Factory AR-NW12A
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 1.65 58.22 95.5 59501
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.65 1.71 90.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 1.65 50 56486 3015 95.2 0.194 0.192 0.1908 0.226 0.2252 RANDOM 23.08
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] 0.15 0.49 0.03 -0.01 0.19 -0.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.028 r_dihedral_angle_4_deg 17.824 r_dihedral_angle_3_deg 13.917 r_dihedral_angle_1_deg 5.73 r_scangle_it 3.74 r_scbond_it 2.301 r_mcangle_it 1.45 r_angle_refined_deg 1.325 r_mcbond_it 0.871 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.028 r_dihedral_angle_4_deg 17.824 r_dihedral_angle_3_deg 13.917 r_dihedral_angle_1_deg 5.73 r_scangle_it 3.74 r_scbond_it 2.301 r_mcangle_it 1.45 r_angle_refined_deg 1.325 r_mcbond_it 0.871 r_nbtor_refined 0.306 r_nbd_refined 0.202 r_xyhbond_nbd_refined 0.172 r_symmetry_hbond_refined 0.162 r_symmetry_vdw_refined 0.131 r_chiral_restr 0.094 r_bond_refined_d 0.01 r_gen_planes_refined 0.005 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3754 Nucleic Acid Atoms Solvent Atoms 389 Heterogen Atoms 80
Software Software Software Name Purpose MOLREP phasing REFMAC refinement HKL-2000 data collection HKL-2000 data reduction SCALEPACK data scaling