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Crystal structure of Enoyl-CoA hydratase from Mycobacterium smegmatis
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3H81
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 290 Internal tracking number 217319A12. PACT screen condition A12:
0.01 M ZnCl2, 0.1 M Na Oac pH 5, 20% PEG6000 MysmA.01566.a.A1 PW29040 at 25.27 mg/mL, vapor diffusion, sitting drop
Crystal Properties Matthews coefficient Solvent content 2.43 49.42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 87.41 α = 90 b = 87.41 β = 90 c = 185.19 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 100 CCD ADSC QUANTUM 315 2010-08-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.3 0.9765 ALS 5.0.3
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 39.5 98.9 0.066 24.37 9.7 36265 35962 -3 23.761
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 92.3 0.492 3.4 6.46 2650
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 3H81 1.6 39.5 36265 35962 1812 99.17 0.149 0.148 0.1523 0.16 0.1651 RANDOM 17.247
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] -0.17 -0.08 -0.17 0.25
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.666 r_dihedral_angle_4_deg 16.607 r_dihedral_angle_3_deg 11.581 r_dihedral_angle_1_deg 5.358 r_scangle_it 3.857 r_scbond_it 2.38 r_angle_refined_deg 1.514 r_mcangle_it 1.447 r_angle_other_deg 0.966 r_mcbond_it 0.796
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.666 r_dihedral_angle_4_deg 16.607 r_dihedral_angle_3_deg 11.581 r_dihedral_angle_1_deg 5.358 r_scangle_it 3.857 r_scbond_it 2.38 r_angle_refined_deg 1.514 r_mcangle_it 1.447 r_angle_other_deg 0.966 r_mcbond_it 0.796 r_mcbond_other 0.25 r_chiral_restr 0.094 r_bond_refined_d 0.015 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1618 Nucleic Acid Atoms Solvent Atoms 297 Heterogen Atoms 5
Software Software Software Name Purpose XSCALE data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction ADSC data collection XDS data reduction