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Structure of the N-terminal domain of XpsE (crystal form I4122)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 277 ammonium sulfate, MgCl2, MES pH 5.6, PEG8000, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.15 60.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 92.479 α = 90 b = 92.479 β = 90 c = 123.763 γ = 90
Symmetry Space Group I 41 2 2
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 2004-07-04 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL12B2 0.9537, 0.9801, 0.9796 SPring-8 BL12B2
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 2.21 28 13800 2 2
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 2.21 2.29 99.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 2.21 28 13800 13571 677 98.4 0.195 0.195 0.193 0.236 0.2344 RANDOM 33.889
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] -0.67 -0.67 1.34
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 8.785 r_scangle_it 5.94 r_scbond_it 3.569 r_mcangle_it 2.325 r_angle_refined_deg 2.055 r_mcbond_it 1.28 r_angle_other_deg 1.035 r_symmetry_vdw_other 0.345 r_symmetry_hbond_refined 0.312 r_nbd_refined 0.248
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 8.785 r_scangle_it 5.94 r_scbond_it 3.569 r_mcangle_it 2.325 r_angle_refined_deg 2.055 r_mcbond_it 1.28 r_angle_other_deg 1.035 r_symmetry_vdw_other 0.345 r_symmetry_hbond_refined 0.312 r_nbd_refined 0.248 r_xyhbond_nbd_refined 0.248 r_nbd_other 0.246 r_chiral_restr 0.159 r_symmetry_vdw_refined 0.147 r_nbtor_other 0.099 r_bond_refined_d 0.024 r_gen_planes_refined 0.01 r_gen_planes_other 0.01 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1165 Nucleic Acid Atoms Solvent Atoms 218 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction SCALEPACK data scaling SHARP phasing