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Crystal structure of Leishmanial E65Q-TIM complexed with S-Glycidol phosphate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1N55 PDB ENTRY 1N55
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 5.5 293 21% PEG6000, 0.1 M SODIUM ACETATE PH 4.5-5.5, 1MM DTT, 1MM EDTA, 1MM NAN3
Crystal Properties Matthews coefficient Solvent content 2.3 0.48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 97.14 α = 90 b = 52.47 β = 117.85 c = 58.09 γ = 90
Symmetry Space Group C 1 2 1
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 MARRESEARCH M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X12 EMBL/DESY, HAMBURG X12
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 0.99 10 97.7 0.07 21.4 5.5 140160
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 0.99 1.02 95.3 0.44 3.8 4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 FREE R-VALUE PDB ENTRY 1N55 0.99 10 133049 7003 97.7 0.1057 0.1171 0.1247 0.1311 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 1941.65 2322.88
RMS Deviations Key Refinement Restraint Deviation s_non_zero_chiral_vol 0.105 s_zero_chiral_vol 0.102 s_anti_bump_dis_restr 0.096 s_approx_iso_adps 0.089 s_similar_adp_cmpnt 0.037 s_angle_d 0.034 s_bond_d 0.017 s_rigid_bond_adp_cmpnt 0.006 s_similar_dist s_from_restr_planes
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1900 Nucleic Acid Atoms Solvent Atoms 417 Heterogen Atoms 30
Software Software Software Name Purpose SHELXL-97 refinement XDS data reduction XSCALE data scaling MOLREP phasing