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Crystal structure of enoyl-coA hydratase EchA15 from Mycobacterium marinum in complex with an unknown ligand
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1WZ8 PDB ENTRY 1WZ8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 290 Internal tracking number 218997A9. JCSG screen condition A9: 20% PEG3350, 0.2 M ammonium chloride. MymaA.00829.b.A1 PS00862 at 43.78mg/ml., pH 5.0, VAPOR DIFFUSION, SITTING DROP, temperature 290K
Crystal Properties Matthews coefficient Solvent content 2.03 39.36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 73.99 α = 90 b = 129.53 β = 108.57 c = 78.61 γ = 90
Symmetry Space Group P 1 21 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 ADSC QUANTUM 315 2010-12-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.1 ALS 5.0.1
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 1.6 48.883 98.4 0.045 23.92 4.5256 184428 181397 -3 21.199
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 1.6 1.64 88.7 0.314 4 3.671 13629
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 MR THROUGHOUT PDB ENTRY 1WZ8 1.6 48.883 184428 181313 9122 98.39 0.138 0.138 0.137 0.151 0.164 0.1759 RANDOM 14.753
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] -0.01 0.15 0.36 -0.26
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.665 r_dihedral_angle_4_deg 16.6 r_dihedral_angle_3_deg 11.828 r_dihedral_angle_1_deg 5.84 r_scangle_it 4.014 r_scbond_it 2.508 r_angle_refined_deg 1.633 r_mcangle_it 1.518 r_angle_other_deg 1.136 r_mcbond_it 0.906
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.665 r_dihedral_angle_4_deg 16.6 r_dihedral_angle_3_deg 11.828 r_dihedral_angle_1_deg 5.84 r_scangle_it 4.014 r_scbond_it 2.508 r_angle_refined_deg 1.633 r_mcangle_it 1.518 r_angle_other_deg 1.136 r_mcbond_it 0.906 r_mcbond_other 0.29 r_chiral_restr 0.104 r_bond_refined_d 0.017 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11683 Nucleic Acid Atoms Solvent Atoms 1292 Heterogen Atoms 109
Software Software Software Name Purpose XSCALE data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction ADSC data collection XDS data reduction