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COLLAGEN-LIKE (PRO-PRO-GLY)10 AT 0.86 GPa HYDROSTATIC PRESSURE
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1K6F CRYSTAL STRUCTURE OF THE COLLAGEN TRIPLE HELIX MODEL [(PRO-PRO-GLY)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291 IN a three-well (connected as well#1-well#2-well#3) glass plate: 20 mu-L PPG solution (10mg/mL in acetic acid 10%) in well#1. 150 mu-L Water in well#2 and 150 mu-L monoglyme in well#3. Monoglyme diffuses in well#2 then well#1. Crystals as small cubes in a week.
Crystal Properties Matthews coefficient Solvent content 1.91 35.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 26.2 α = 90 b = 25.75 β = 90 c = 180.49 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 291 PIXEL DECTRIS EIGER2 X CdTe 9M 2022-02-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID15B 0.410 ESRF ID15B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 24.8 79.7 0.093 0.995 4.2 3.8 27472 13.7
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.7 1.744 86.4 0.35 0.995 2.4 3.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 1.7 24.762 12140 608 84.711 0.203 0.1999 0.2012 0.2555 0.2524 12.254
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] 0.12 -0.408 0.289
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 15.29 r_lrange_other 15.176 r_dihedral_angle_1_deg 7.27 r_mcangle_other 5.157 r_mcangle_it 5.155 r_scangle_it 3.574 r_scangle_other 3.572 r_mcbond_it 3.264 r_mcbond_other 3.238 r_rigid_bond_restr 2.513
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 15.29 r_lrange_other 15.176 r_dihedral_angle_1_deg 7.27 r_mcangle_other 5.157 r_mcangle_it 5.155 r_scangle_it 3.574 r_scangle_other 3.572 r_mcbond_it 3.264 r_mcbond_other 3.238 r_rigid_bond_restr 2.513 r_scbond_it 2.2 r_scbond_other 2.168 r_angle_refined_deg 1.51 r_angle_other_deg 0.913 r_symmetry_nbd_refined 0.33 r_xyhbond_nbd_other 0.294 r_symmetry_xyhbond_nbd_refined 0.225 r_nbd_refined 0.22 r_nbd_other 0.22 r_xyhbond_nbd_refined 0.212 r_symmetry_nbd_other 0.192 r_nbtor_refined 0.188 r_chiral_restr 0.105 r_symmetry_nbtor_other 0.098 r_gen_planes_refined 0.01 r_bond_refined_d 0.008 r_bond_other_d 0.001 r_gen_planes_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1140 Nucleic Acid Atoms Solvent Atoms 306 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction STARANISO data scaling MOLREP phasing