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Crystal Structure of the R3 form of Pectate Lyase A, Erwinia chrysanthemi
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other PelE search model comprised of residues 30-61, 70-100, 105-251, 258-280, 293-314, and 323-332. (Coordinates provided by F. Jurnak)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 295 PEG 8K, PEG1K, HEPES, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.59 52.49
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 98.055 α = 90 b = 98.055 β = 90 c = 217.162 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 153 IMAGE PLATE MARRESEARCH 2000-04-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.5418
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 2.1 50 92 0.077 12 45453 41984
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.1 2.18 99 0.31 3.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 PelE search model comprised of residues 30-61, 70-100, 105-251, 258-280, 293-314, and 323-332. (Coordinates provided by F. Jurnak) 2.1 50 45453 41984 3990 92.4 0.16 0.16 0.1607 0.211 0.2092 random
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] -1.216 -1.56 -1.216 2.432
RMS Deviations Key Refinement Restraint Deviation c_scangle_it 2.175 c_mcangle_it 1.753 c_scbond_it 1.526 c_angle_deg 1.424 c_mcbond_it 1.057 c_bond_d 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5309 Nucleic Acid Atoms Solvent Atoms 326 Heterogen Atoms 20
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling AMoRE phasing CNS refinement