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Crystal structure of GlmU from Mycobacterium tuberculosis in complex with ACETYL COENZYME A and URIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3DJ4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 sitting drop 8.5 291 0.1M Tris-Cl, pH-8.5, 2% Tacsimate, 18% PEG 3350, sitting drop, temperature 291K
Crystal Properties Matthews coefficient Solvent content 4.02 69.43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 110.194 α = 90 b = 110.194 β = 90 c = 361.295 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 MARCCD 225 mirrors 2011-01-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 0.97625 ESRF BM14
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 2.33 19.808 99.8 0.054 24.88 36542 -3 42.057
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.33 2.39 98.3 0.359 0.387 5.05
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 3DJ4 2.33 19.68 35443 1001 99.85 0.19291 0.19205 0.1945 0.22359 0.2254 RANDOM 31.524
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] 0.0001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.4 r_dihedral_angle_4_deg 22.17 r_dihedral_angle_3_deg 17.29 r_dihedral_angle_1_deg 7.186 r_scangle_it 6.09 r_scbond_it 3.798 r_angle_refined_deg 2.353 r_mcangle_it 2.173 r_mcbond_it 1.189 r_chiral_restr 0.246
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.4 r_dihedral_angle_4_deg 22.17 r_dihedral_angle_3_deg 17.29 r_dihedral_angle_1_deg 7.186 r_scangle_it 6.09 r_scbond_it 3.798 r_angle_refined_deg 2.353 r_mcangle_it 2.173 r_mcbond_it 1.189 r_chiral_restr 0.246 r_bond_refined_d 0.026 r_gen_planes_refined 0.011 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined 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 3471 Nucleic Acid Atoms Solvent Atoms 212 Heterogen Atoms 93
Software Software Software Name Purpose XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction