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Crystal Structure of the FHA Domain of Human Polynucleotide Kinase 3' Phosphatase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1UJX PDB ENTRY 1UJX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 PROTEIN WAS CRYSTALLISED IN 0.1 M TRIS-HCL PH 8.5, 2.0 M AMMONIUM SULPHATE
Crystal Properties Matthews coefficient Solvent content 2 37.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 31.812 α = 90 b = 40.047 β = 90.96 c = 37.512 γ = 90
Symmetry Space Group P 1 21 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 CCD 2004-12-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 ESRF ID14-1
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 1.4 37.5 97.2 0.05 8.9 3.4 16490
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 1.4 1.44 88 0.16 3.9 2.4
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 PDB ENTRY 1UJX 1.4 37.5 15643 834 88 0.152 0.15 0.1616 0.183 0.1961 RANDOM 8.84
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] -0.33 0.02 0.06 0.27
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.932 r_dihedral_angle_4_deg 11.591 r_dihedral_angle_3_deg 10.403 r_dihedral_angle_1_deg 6.85 r_scangle_it 4.68 r_scbond_it 3.671 r_angle_refined_deg 2.512 r_mcangle_it 2.23 r_mcbond_it 2.104 r_angle_other_deg 1.068
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.932 r_dihedral_angle_4_deg 11.591 r_dihedral_angle_3_deg 10.403 r_dihedral_angle_1_deg 6.85 r_scangle_it 4.68 r_scbond_it 3.671 r_angle_refined_deg 2.512 r_mcangle_it 2.23 r_mcbond_it 2.104 r_angle_other_deg 1.068 r_xyhbond_nbd_refined 0.445 r_symmetry_vdw_other 0.324 r_symmetry_vdw_refined 0.289 r_symmetry_hbond_refined 0.289 r_nbd_refined 0.245 r_nbd_other 0.207 r_chiral_restr 0.187 r_nbtor_refined 0.166 r_nbtor_other 0.089 r_bond_refined_d 0.03 r_gen_planes_refined 0.013 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 755 Nucleic Acid Atoms Solvent Atoms 143 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing