☰ Navigation Tabs
CRYSTAL STRUCTURE OF A catalytically promiscuous PHOSPHONATE MONOESTER HYDROLASE FROM Burkholderia caryophylli
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2VQR PDB ENTRY 2VQR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 0.1 M MES PH 6.5, 20 % (W/V) PEG 5000 MME, 0.3 M (NH4)2SO4
Crystal Properties Matthews coefficient Solvent content 2.5 50.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.7 α = 90 b = 200.1 β = 90 c = 211.7 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 100 IMAGE PLATE RIGAKU IMAGE PLATE CONFOCAL MAXFLUX 2006-11-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RUH3R
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 2.4 48.62 98.9 0.14 11.49 5.2 96059 -3
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 2.4 2.5 95.9 0.61 2.52 4.4
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 PDB ENTRY 2VQR 2.4 48.62 91070 4887 98.9 0.185 0.182 0.239 0.2132 RANDOM 21.96
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] 0.76 -1.25 0.49
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.505 r_dihedral_angle_4_deg 19.671 r_dihedral_angle_3_deg 17.357 r_dihedral_angle_1_deg 6.558 r_scangle_it 2.922 r_scbond_it 1.849 r_angle_refined_deg 1.554 r_mcangle_it 1.169 r_angle_other_deg 1.122 r_mcbond_it 0.626
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.505 r_dihedral_angle_4_deg 19.671 r_dihedral_angle_3_deg 17.357 r_dihedral_angle_1_deg 6.558 r_scangle_it 2.922 r_scbond_it 1.849 r_angle_refined_deg 1.554 r_mcangle_it 1.169 r_angle_other_deg 1.122 r_mcbond_it 0.626 r_chiral_restr 0.116 r_bond_refined_d 0.015 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 16358 Nucleic Acid Atoms Solvent Atoms 818 Heterogen Atoms 67
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling AMoRE phasing