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CRYSTAL STRUCTURE OF THE HUMAN BETA-2-SYNTROPHIN PDZ DOMAIN
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1QAV PDB ENTRIES 1QAV, 2GZV experimental model PDB 2GZV PDB ENTRIES 1QAV, 2GZV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8.2 1.4 M NA-CITRATE, HEPES PH 8.2
Crystal Properties Matthews coefficient Solvent content 2.59 52.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.687 α = 90 b = 29.503 β = 95.78 c = 128.382 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 MARRESEARCH 2008-03-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA SLS X10SA
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 63 99.6 0.12 7.2 3.4 29264 2.1 21
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 2 2.11 98.7 0.69 2.1 3.1
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 ENTRIES 1QAV, 2GZV 2 56.43 28082 1146 99.5 0.186 0.184 0.1921 0.247 0.2524 RANDOM 24.4
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] 2.21 -1.43 -1.66 -0.83
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.676 r_dihedral_angle_4_deg 15.465 r_dihedral_angle_3_deg 13.821 r_scangle_it 10.101 r_dihedral_angle_1_deg 6.881 r_scbond_it 6.321 r_mcangle_it 3.711 r_mcbond_it 2.264 r_angle_refined_deg 1.391 r_angle_other_deg 0.833
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.676 r_dihedral_angle_4_deg 15.465 r_dihedral_angle_3_deg 13.821 r_scangle_it 10.101 r_dihedral_angle_1_deg 6.881 r_scbond_it 6.321 r_mcangle_it 3.711 r_mcbond_it 2.264 r_angle_refined_deg 1.391 r_angle_other_deg 0.833 r_chiral_restr 0.079 r_bond_refined_d 0.013 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined 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 2857 Nucleic Acid Atoms Solvent Atoms 165 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing