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Crystal structure of human cystathionine beta-synthase (delta516-525) in complex with AOAA.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4COO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 140 mM Na FORMATE, 20% PEG3350
Crystal Properties Matthews coefficient Solvent content 2.88 57.25
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 125.553 α = 90 b = 134.573 β = 90 c = 169.291 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 100 PIXEL DECTRIS EIGER X 16M 2021-07-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.976284 Diamond I03
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 2.691 100.846 92.9 0.988 6.5 11.6 22433
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 2.691 2.922 0.668
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 4coo 2.691 55.97 22428 1090 55.9 0.21 0.2083 0.2418 0.2181 RANDOM 51.78
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] -7.8322 16.1909 -8.3587
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 16.06 t_omega_torsion 3.08 t_angle_deg 0.87 t_bond_d 0.006 t_dihedral_angle_d t_gen_planes t_it t_chiral_improper_torsion t_ideal_dist_contact
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7754 Nucleic Acid Atoms Solvent Atoms 167 Heterogen Atoms 122
Software Software Software Name Purpose BUSTER refinement autoPROC data reduction Aimless data scaling REFMAC phasing