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Crystal Structure of domain 3 of human alpha polyC binding protein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1EC6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 295 HEPES, lithium Sulfate, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2 39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 33.4 α = 90 b = 71 β = 90 c = 29.1 γ = 90
Symmetry Space Group P 21 21 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 IMAGE PLATE RIGAKU RAXIS IV OSMIC mirrors 2002-03-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.54
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 2.1 35.51 98.9 0.042 27.4 6 5911 3817 -3 30.2
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) 2.1 2.17 87.7 0.258 3.5
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 (All) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1EC6 2.1 35.51 5911 3817 462 98.01 0.215 0.214 0.19022 0.1957 0.24758 RANDOM 26.124
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] 0.01 -0.52 0.51
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.717 r_dihedral_angle_4_deg 23.5 r_dihedral_angle_3_deg 17.088 r_dihedral_angle_1_deg 4.948 r_scangle_it 3.55 r_scbond_it 2.283 r_mcangle_it 1.537 r_angle_refined_deg 1.279 r_mcbond_it 0.954 r_nbtor_refined 0.29
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.717 r_dihedral_angle_4_deg 23.5 r_dihedral_angle_3_deg 17.088 r_dihedral_angle_1_deg 4.948 r_scangle_it 3.55 r_scbond_it 2.283 r_mcangle_it 1.537 r_angle_refined_deg 1.279 r_mcbond_it 0.954 r_nbtor_refined 0.29 r_xyhbond_nbd_refined 0.23 r_nbd_refined 0.2 r_symmetry_vdw_refined 0.189 r_symmetry_hbond_refined 0.183 r_chiral_restr 0.077 r_bond_refined_d 0.012 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 539 Nucleic Acid Atoms Solvent Atoms 55 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement SCALEPACK data scaling AMoRE phasing