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Endopolygalacturonase I from Stereum purpureum complexed with a galacturonate at 1.00 A resolution.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1K5C PDB ENTRY 1K5C
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 293 PEG 4000, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.65 45.05
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.515 α = 72.31 b = 52.138 β = 69.09 c = 37.187 γ = 70.35
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 90 CCD MAR CCD 165 mm 2000-10-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL44B2 0.7 SPring-8 BL44B2
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 25.3 93.8 0.053 6.1 4.3 152404 152404 1 1 6.38
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) 1 1 1.05 89.9 0.172 3.8 3.7
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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R PDB ENTRY 1K5C 1 10 144672 152299 7627 89.1 0.114 0.1094 0.109 0.1364 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]
Coordinate Error Structure Solution Method Refinement High Resolution Refinement Low Resolution 20 2982.98
RMS Deviations Key Refinement Restraint Deviation s_non_zero_chiral_vol 0.101 s_approx_iso_adps 0.092 s_zero_chiral_vol 0.089 s_similar_adp_cmpnt 0.039 s_from_restr_planes 0.0343 s_angle_d 0.031 s_bond_d 0.016 s_rigid_bond_adp_cmpnt 0.006 s_similar_dist s_anti_bump_dis_restr
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2415 Nucleic Acid Atoms Solvent Atoms 585 Heterogen Atoms 43
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling REFMAC refinement SHELXL-97 refinement CCP4 data scaling