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Low-dose crystal structure of FAP at room temperature
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6YRU
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 281 PEG 4000, Na citrate, spermidine
Crystal Properties Matthews coefficient Solvent content 3.33 63.06
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 95.65 α = 90 b = 105.65 β = 90 c = 158.01 γ = 90
Symmetry Space Group I 2 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 298 PIXEL DECTRIS PILATUS3 6M 2017-12-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID30B 0.9677 ESRF ID30B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 1.87 88 98.1 0.109 0.124 0.996 7.58 4.278 65032 36.072
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.87 2 99.7 1.064 1.208 0.436 0.98 4.287
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 6YRU 1.87 47.181 64990 3225 97.984 0.156 0.1544 0.1666 0.18 0.1716 34.631
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] 1.073 -1.282 0.209
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.451 r_dihedral_angle_4_deg 18.029 r_dihedral_angle_3_deg 14.732 r_lrange_it 8.237 r_lrange_other 8.163 r_dihedral_angle_1_deg 7.301 r_scangle_it 6.579 r_scangle_other 6.578 r_scbond_it 4.235 r_scbond_other 4.235
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.451 r_dihedral_angle_4_deg 18.029 r_dihedral_angle_3_deg 14.732 r_lrange_it 8.237 r_lrange_other 8.163 r_dihedral_angle_1_deg 7.301 r_scangle_it 6.579 r_scangle_other 6.578 r_scbond_it 4.235 r_scbond_other 4.235 r_mcangle_it 3.587 r_mcangle_other 3.582 r_mcbond_it 2.635 r_mcbond_other 2.62 r_angle_refined_deg 1.698 r_angle_other_deg 1.407 r_nbd_refined 0.203 r_nbd_other 0.199 r_symmetry_nbd_other 0.183 r_xyhbond_nbd_refined 0.17 r_nbtor_refined 0.164 r_symmetry_nbd_refined 0.145 r_symmetry_xyhbond_nbd_other 0.138 r_symmetry_nbtor_other 0.083 r_symmetry_xyhbond_nbd_refined 0.083 r_chiral_restr 0.078 r_bond_refined_d 0.011 r_gen_planes_refined 0.011 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4216 Nucleic Acid Atoms Solvent Atoms 340 Heterogen Atoms 93
Software Software Software Name Purpose REFMAC refinement XSCALE data scaling PDB_EXTRACT data extraction XDS data reduction MOLREP phasing