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Crystal Structure a TP53-induced glycolysis and apoptosis regulator protein from Homo sapiens.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 297 PROTEIN SOLUTION (10 MG/ML SEMET PROTEIN, 0.050 M NACL, 0.0003 M TCEP, 0.005 M MES PH 6.0) MIXED IN A 1:1 RATIO WITH WELL SOLUTION (20% PEG 3350, 0.10 M MES PH 6.0) CRYOPROTECTED WITH 20% ETHYLENE GLYCOL, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 297K
Crystal Properties Matthews coefficient Solvent content 2.1 40.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.983 α = 90 b = 76.408 β = 90 c = 79.536 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 300 mm CCD Adjustable focusing mirrors in K-B geometry 2008-04-04 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 0.97942 APS 23-ID-D
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 1.748 50 99.8 0.109 16.223 13.9 25927
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) 1.75 1.81 98.4 0.54 2.369 9.7 2514
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 SAD THROUGHOUT 1.748 50 25870 1313 99.511 0.182 0.18 0.1746 0.229 0.216 RANDOM 21.653
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] -0.357 0.22 0.137
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.426 r_dihedral_angle_4_deg 20.907 r_dihedral_angle_3_deg 14.257 r_dihedral_angle_1_deg 5.979 r_scangle_it 4.022 r_scbond_it 2.686 r_mcangle_it 1.696 r_angle_refined_deg 1.479 r_mcbond_it 1.079 r_nbtor_refined 0.304
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.426 r_dihedral_angle_4_deg 20.907 r_dihedral_angle_3_deg 14.257 r_dihedral_angle_1_deg 5.979 r_scangle_it 4.022 r_scbond_it 2.686 r_mcangle_it 1.696 r_angle_refined_deg 1.479 r_mcbond_it 1.079 r_nbtor_refined 0.304 r_nbd_refined 0.208 r_symmetry_vdw_refined 0.17 r_xyhbond_nbd_refined 0.126 r_symmetry_hbond_refined 0.118 r_chiral_restr 0.105 r_bond_refined_d 0.015 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2007 Nucleic Acid Atoms Solvent Atoms 266 Heterogen Atoms 5
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SHARP phasing DM phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction