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Burkholderia cepacia lipase complexed with hexylphosphonic acid (S) 2-methyl-3-phenylpropyl ester
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3LIP PDB ENTRY 3LIP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 50 mM imidazole, 30% n-propanol, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.25 45.33
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88.93 α = 90 b = 46.233 β = 121.35 c = 84.729 γ = 90
Symmetry Space Group C 1 2 1
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 2000-05-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X8C 0.9795 NSLS X8C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.5 37.8 0.043 19 3.57 47328 42707 1 1 9.42
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 3LIP 1.5 37.8 40536 2170 90.29 0.15115 0.15054 0.1569 0.1625 0.168 RANDOM 8.447
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] 0.05 -0.25 0.38 -0.69
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.621 r_scangle_it 2.731 r_scbond_it 1.725 r_angle_refined_deg 1.349 r_mcangle_it 1.156 r_angle_other_deg 0.828 r_mcbond_it 0.667 r_nbd_other 0.248 r_nbd_refined 0.238 r_symmetry_vdw_other 0.238
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.621 r_scangle_it 2.731 r_scbond_it 1.725 r_angle_refined_deg 1.349 r_mcangle_it 1.156 r_angle_other_deg 0.828 r_mcbond_it 0.667 r_nbd_other 0.248 r_nbd_refined 0.238 r_symmetry_vdw_other 0.238 r_symmetry_vdw_refined 0.187 r_chiral_restr 0.086 r_nbtor_other 0.082 r_metal_ion_refined 0.081 r_xyhbond_nbd_refined 0.075 r_symmetry_hbond_refined 0.012 r_bond_refined_d 0.01 r_gen_planes_refined 0.006 r_gen_planes_other 0.003 r_bond_other_d 0.002 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_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 2331 Nucleic Acid Atoms Solvent Atoms 147 Heterogen Atoms 20
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling CNS phasing