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Application of anti-helix antibodies in protein structure determination (8189-3LRH)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3LRH 3LRH, 1DEE experimental model PDB 1DEE 3LRH, 1DEE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 296 30% PEG 4000,
0.2M MgCl2,
0.1M MOPS pH 6.5
Crystal Properties Matthews coefficient Solvent content 1.57 21.55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 27.345 α = 90 b = 56.102 β = 90 c = 96.096 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 MAR CCD 130 mm 2016-05-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 7A (6B, 6C1) 0.979 PAL/PLS 7A (6B, 6C1)
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rpim I (All) 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 1.8 50 98.4 0.022 39.1 6 14114
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.86 0.037
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 3LRH, 1DEE 1.8 28 13319 717 97.78 0.19179 0.18964 0.2017 0.23123 0.2436 RANDOM 10.881
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] 0.2 -0.19 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.97 r_dihedral_angle_4_deg 19.63 r_dihedral_angle_3_deg 12.875 r_dihedral_angle_1_deg 6.48 r_long_range_B_refined 5.054 r_long_range_B_other 4.849 r_scangle_other 3.365 r_scbond_it 2.225 r_scbond_other 2.223 r_mcangle_other 1.916
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.97 r_dihedral_angle_4_deg 19.63 r_dihedral_angle_3_deg 12.875 r_dihedral_angle_1_deg 6.48 r_long_range_B_refined 5.054 r_long_range_B_other 4.849 r_scangle_other 3.365 r_scbond_it 2.225 r_scbond_other 2.223 r_mcangle_other 1.916 r_mcangle_it 1.915 r_angle_refined_deg 1.71 r_angle_other_deg 1.516 r_mcbond_it 1.174 r_mcbond_other 1.172 r_chiral_restr 0.088 r_bond_refined_d 0.011 r_gen_planes_refined 0.009 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1300 Nucleic Acid Atoms Solvent Atoms 149 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing