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Crystal structure of an enoyl-CoA hydratase/isomerase from Mycobacterium paratuberculosis
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3Q1T
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 289 MypaA.00829.c.A1 PW29413 at 25.67 mg/mL against PACT screen condition D11, 0.2 M CaCl2, 0.1 M Tris pH 8.0, 20% PEG 6000 with 25% ethylene glycol as cryo-protectant, crystal tracking ID 220560d11, VAPOR DIFFUSION, SITTING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.05 40.11
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.08 α = 90 b = 134.05 β = 90 c = 140.97 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 100 CCD ADSC QUANTUM 315r 2011-03-24 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 2.45 50 99.7 0.116 13.36 6 54480 54320 -3 36.336
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) 2.45 2.51 100 0.543 3.47 6.2 4004
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 3q1t 2.45 50 54142 2747 99.39 0.182 0.179 0.1811 0.2381 0.2391 RANDOM 26.9718
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] 0.62 0.08 -0.69
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.989 r_dihedral_angle_4_deg 20.495 r_dihedral_angle_3_deg 15.548 r_dihedral_angle_1_deg 6.25 r_scangle_it 3.088 r_scbond_it 1.865 r_angle_refined_deg 1.438 r_mcangle_it 1.053 r_mcbond_it 0.552 r_chiral_restr 0.093
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.989 r_dihedral_angle_4_deg 20.495 r_dihedral_angle_3_deg 15.548 r_dihedral_angle_1_deg 6.25 r_scangle_it 3.088 r_scbond_it 1.865 r_angle_refined_deg 1.438 r_mcangle_it 1.053 r_mcbond_it 0.552 r_chiral_restr 0.093 r_bond_refined_d 0.014 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11101 Nucleic Acid Atoms Solvent Atoms 449 Heterogen Atoms 14
Software Software Software Name Purpose XSCALE data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction XDS data reduction