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Crystal structure of mouse Sts-1 PGM domain in complex with phosphate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1H0Q PDB entry 1H0Q
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7 293 14% PEG 8000, 0.1 M HEPES, 0.3 M Na Acetate, 0.2 M Na/K phosphate, pH 7.0, VAPOR DIFFUSION, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.38 48.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 116.96 α = 90 b = 74.671 β = 100.79 c = 101.279 γ = 90
Symmetry Space Group C 1 2 1
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 2006-02-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X26C 1.0 NSLS X26C
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 2.609 100 98 0.63 0.63 30 4.1 25668 25668 2 74.8
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.609 2.69 99.5 0.556 0.556 3.2 4.2 2582
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 FOURIER SYNTHESIS THROUGHOUT PDB entry 1H0Q 2.609 99.5 25664 24371 1293 97.58 0.2491 0.24773 0.3103 0.27515 0.3276 RANDOM 68.359
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] -4.21 -1.42 8.82 -5.15
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.681 r_dihedral_angle_4_deg 20.943 r_dihedral_angle_3_deg 19.431 r_dihedral_angle_1_deg 6.359 r_scangle_it 2.312 r_scbond_it 1.494 r_angle_refined_deg 1.42 r_mcangle_it 1.294 r_mcbond_it 0.707 r_symmetry_hbond_refined 0.43
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.681 r_dihedral_angle_4_deg 20.943 r_dihedral_angle_3_deg 19.431 r_dihedral_angle_1_deg 6.359 r_scangle_it 2.312 r_scbond_it 1.494 r_angle_refined_deg 1.42 r_mcangle_it 1.294 r_mcbond_it 0.707 r_symmetry_hbond_refined 0.43 r_symmetry_vdw_refined 0.367 r_nbtor_refined 0.315 r_nbd_refined 0.244 r_xyhbond_nbd_refined 0.157 r_chiral_restr 0.095 r_bond_refined_d 0.011 r_gen_planes_refined 0.004 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6103 Nucleic Acid Atoms Solvent Atoms 10 Heterogen Atoms 15
Software Software Software Name Purpose HKL-2000 data collection CCP4 model building REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling CCP4 phasing