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X-ray structure of Candida Antarctica lipase A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2VEO PDB ENTRY 2VEO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 294 1.5M Ammonium sulfate, 12% glycerol, 100mM TRIS-HCl pH 8.5 , VAPOR DIFFUSION, HANGING DROP, temperature 294.0K
Crystal Properties Matthews coefficient Solvent content 3.23 61.89
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 92.1 α = 90 b = 92.1 β = 90 c = 300.4 γ = 90
Symmetry Space Group P 43 21 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 CCD ADSC QUANTUM 4 2007-12-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 0.93300 ESRF ID14-2
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 2.1 20 98.2 0.174 9.64 6.5 88351 86764 -3 20.9
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.1 2.3 96.4 0.433 0.434 4.42 6.3 17290
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 PDB ENTRY 2VEO 2.1 19.92 71879 3784 100 0.19136 0.18914 0.196 0.23365 0.2345 RANDOM 14.292
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] 0.47 0.47 -0.94
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.19 r_dihedral_angle_4_deg 19.455 r_dihedral_angle_3_deg 15.092 r_dihedral_angle_1_deg 6.131 r_angle_other_deg 3.689 r_scangle_it 3.487 r_scbond_it 2.366 r_angle_refined_deg 1.713 r_mcangle_it 1.339 r_mcbond_it 0.869
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.19 r_dihedral_angle_4_deg 19.455 r_dihedral_angle_3_deg 15.092 r_dihedral_angle_1_deg 6.131 r_angle_other_deg 3.689 r_scangle_it 3.487 r_scbond_it 2.366 r_angle_refined_deg 1.713 r_mcangle_it 1.339 r_mcbond_it 0.869 r_nbd_other 0.375 r_nbtor_refined 0.31 r_nbd_refined 0.22 r_xyhbond_nbd_refined 0.178 r_symmetry_vdw_refined 0.178 r_symmetry_hbond_refined 0.134 r_chiral_restr 0.125 r_nbtor_other 0.124 r_bond_other_d 0.12 r_bond_refined_d 0.02 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6535 Nucleic Acid Atoms Solvent Atoms 499 Heterogen Atoms 43
Software Software Software Name Purpose XDS data scaling PHASER phasing REFMAC refinement INTEGRATE data reduction XSCALE data scaling