☰ Navigation Tabs
Crystal structure of peptide-substrate-binding domain of human type I collagen prolyl 4-hydroxylase
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.4 277 ammonium phosphate, pH 8.4, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 4.3 71.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.98 α = 90 b = 55.98 β = 90 c = 105.43 γ = 120
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 2003-01-01 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I711 0.9814, 0.9811, 0.9745 MAX II I711
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 2.3 40 98.7 0.038 15.66 3.16 16406 16195 52.2
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 2.3 2.4 99.2 0.258 3.7 3.1 1940
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 MAD THROUGHOUT 2.3 35.58 16190 15369 821 100 0.2257 0.22394 0.2163 0.25872 0.2504 RANDOM 33.749
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] 4.5 2.25 4.5 -6.76
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 7.56 r_scangle_it 3.952 r_scbond_it 2.441 r_angle_refined_deg 1.677 r_mcangle_it 1.332 r_mcbond_it 0.668 r_nbd_refined 0.224 r_symmetry_vdw_refined 0.173 r_symmetry_hbond_refined 0.143 r_xyhbond_nbd_refined 0.139
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 7.56 r_scangle_it 3.952 r_scbond_it 2.441 r_angle_refined_deg 1.677 r_mcangle_it 1.332 r_mcbond_it 0.668 r_nbd_refined 0.224 r_symmetry_vdw_refined 0.173 r_symmetry_hbond_refined 0.143 r_xyhbond_nbd_refined 0.139 r_chiral_restr 0.131 r_bond_refined_d 0.018 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1562 Nucleic Acid Atoms Solvent Atoms 73 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MAR345 data collection XDS data scaling SOLVE phasing