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Rhamnogalacturonan acetylesterase with seven N-linked carbohydrate residues distributed at two N-glycosylation sites refined at 1.12 A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DEO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 298 Li2SO4, sodium acetate, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K
Crystal Properties Matthews coefficient Solvent content 1.85 43.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.17 α = 90 b = 56.92 β = 90 c = 71.69 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 263 IMAGE PLATE MARRESEARCH mirrors 1997-06-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7B 1.1024 EMBL/DESY, HAMBURG BW7B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.12 38 97.7 644629 644629
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 1.12 1.14 82.1 0.37
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 (All) 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 MIR FREE R 1DEO 1.12 40 80568 71116 4019 97.8 0.1095 0.1045 0.1033 0.104 0.1344 0.1077 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 16 1706 2123.96
RMS Deviations Key Refinement Restraint Deviation s_anti_bump_dis_restr 0.195 s_non_zero_chiral_vol 0.106 s_approx_iso_adps 0.103 s_zero_chiral_vol 0.079 s_similar_adp_cmpnt 0.041 s_angle_d 0.031 s_from_restr_planes 0.0264 s_similar_dist 0.024 s_rigid_bond_adp_cmpnt 0.022 s_bond_d 0.015
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1735 Nucleic Acid Atoms Solvent Atoms 329 Heterogen Atoms 106
Software Software Software Name Purpose MAR345 data collection SCALEPACK data scaling MLPHARE phasing SHELXL-97 refinement