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Lyngbyastatin 7-Porcine Pancreatic Elastase Co-crystal Structure
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2V0B
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 293 0.01 M sodium acetate pH 5.0, 0.42 M sodium sulfate, hanging drop, lyngbyastatin 7 dissolved in methanol, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.12 41.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.399 α = 90 b = 57.419 β = 90 c = 74.328 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 CCD ADSC QUANTUM 210 Rh coated toroidal focusing mirror 2008-06-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X6A 0.9537 NSLS X6A
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 1.55 30 99.6 0.044 41.1 7.7 33573 33573 2 20.6
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 1.55 1.56 84 0.55 2 4.9 699
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 2V0B 1.55 28.71 31822 1696 99.89 0.17754 0.17606 0.1776 0.2062 0.2074 RANDOM 24.39
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] 2.14 -0.97 -1.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.827 r_dihedral_angle_4_deg 20.521 r_dihedral_angle_3_deg 12.535 r_dihedral_angle_1_deg 6.402 r_angle_refined_deg 1.709 r_chiral_restr 0.149 r_bond_refined_d 0.013 r_gen_planes_refined 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1890 Nucleic Acid Atoms Solvent Atoms 243 Heterogen Atoms 6
Software Software Software Name Purpose DCS_X6A data collection MOLREP phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling