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Human angiogenin PD/ALS variant R121C
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ANG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 289 0.2 M Na/K tartrate
0.1 M bis-tris propane
16% PEG 4000
Crystal Properties Matthews coefficient Solvent content 3.2 61.56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.539 α = 90 b = 118.969 β = 90 c = 37.409 γ = 90
Symmetry Space Group C 2 2 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 PIXEL DECTRIS PILATUS 2M 2014-05-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.9200 Diamond I04-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) CC (Half) 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 1.7 67.8 99.7 0.997 7.3 5.1 20751
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.7 1.73 98.6 0.47 0.9 5.1 1063
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 1ANG 1.7 67.8 19631 1054 99.66 0.21025 0.20873 0.2165 0.23883 0.2461 RANDOM 32.177
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] -1.08 3.26 -2.18
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.326 r_dihedral_angle_4_deg 16.498 r_dihedral_angle_3_deg 13.277 r_long_range_B_refined 7.064 r_long_range_B_other 6.88 r_dihedral_angle_1_deg 6.555 r_scangle_other 4.325 r_mcangle_it 3.344 r_mcangle_other 3.342 r_scbond_it 2.565
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.326 r_dihedral_angle_4_deg 16.498 r_dihedral_angle_3_deg 13.277 r_long_range_B_refined 7.064 r_long_range_B_other 6.88 r_dihedral_angle_1_deg 6.555 r_scangle_other 4.325 r_mcangle_it 3.344 r_mcangle_other 3.342 r_scbond_it 2.565 r_scbond_other 2.562 r_mcbond_it 2.044 r_mcbond_other 2.043 r_angle_refined_deg 1.374 r_angle_other_deg 0.974 r_chiral_restr 0.085 r_bond_refined_d 0.011 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 977 Nucleic Acid Atoms Solvent Atoms 110 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement DIALS data reduction Aimless data scaling PHASER phasing