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Crystal structure of wild-type of Enoyl-ACP(CoA) reductase from Mycobacterium tuberculosis in complex with NADH.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ENY PDB ENTRY 1ENY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.2 293 0.05 M Sodium citrate, 0.05 M Hepes, 8-15% 2-Methyl-2-4-pentanediol (MPD), pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.24 62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 96.022 α = 90 b = 96.022 β = 90 c = 138.164 γ = 120
Symmetry Space Group P 62 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 104 CCD MARRESEARCH 2003-09-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON LNLS BEAMLINE D03B-MX1 1.431 LNLS D03B-MX1
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 1.92 39.84 97.7 26972 2 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.92 2.03 94.8
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 PDB ENTRY 1ENY 1.92 33.24 26972 1446 97.15 0.18876 0.18746 0.1876 0.2128 0.2105 RANDOM 24.316
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] 0.02 0.01 0.02 -0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.697 r_dihedral_angle_4_deg 17.825 r_dihedral_angle_3_deg 15.65 r_dihedral_angle_1_deg 5.984 r_scangle_it 3.872 r_scbond_it 2.534 r_angle_refined_deg 1.75 r_mcangle_it 1.365 r_mcbond_it 0.954 r_nbtor_refined 0.318
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.697 r_dihedral_angle_4_deg 17.825 r_dihedral_angle_3_deg 15.65 r_dihedral_angle_1_deg 5.984 r_scangle_it 3.872 r_scbond_it 2.534 r_angle_refined_deg 1.75 r_mcangle_it 1.365 r_mcbond_it 0.954 r_nbtor_refined 0.318 r_symmetry_vdw_refined 0.27 r_nbd_refined 0.226 r_symmetry_hbond_refined 0.167 r_xyhbond_nbd_refined 0.143 r_chiral_restr 0.139 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1984 Nucleic Acid Atoms Solvent Atoms 176 Heterogen Atoms 49
Software Software Software Name Purpose REFMAC refinement SCALA data scaling AMoRE phasing X-PLOR refinement CCP4 data scaling MOSFLM data reduction