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Crystal Structure Of Mycobacterium tuberculosis Guanylate Kinase In Complex With GMP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ZNW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 9 293 15% (w/v) xylitol, 3.5M sodium chloride, 0.1M bicine, pH 9.0, VAPOR DIFFUSION, HANGING DROP, temperature 293.0K
Crystal Properties Matthews coefficient Solvent content 2.68 54.05
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 112.231 α = 90 b = 112.231 β = 90 c = 112.231 γ = 90
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 4 mirrors 2003-12-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 0.9756 ESRF ID29
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.35 19.5 99.6 0.07 30.7 21.9 9932 9932 50.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.35 2.41 100 0.442 8.9 22.2 720
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 1ZNW 2.35 19.25 9932 9932 493 99.9 0.18302 0.18047 0.1792 0.23131 0.2014 RANDOM 36.736
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.451 r_dihedral_angle_4_deg 17.984 r_dihedral_angle_3_deg 17.316 r_dihedral_angle_1_deg 5.957 r_scangle_it 3.426 r_scbond_it 2.046 r_angle_refined_deg 1.52 r_mcangle_it 1.044 r_mcbond_it 0.87 r_nbtor_refined 0.295
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.451 r_dihedral_angle_4_deg 17.984 r_dihedral_angle_3_deg 17.316 r_dihedral_angle_1_deg 5.957 r_scangle_it 3.426 r_scbond_it 2.046 r_angle_refined_deg 1.52 r_mcangle_it 1.044 r_mcbond_it 0.87 r_nbtor_refined 0.295 r_symmetry_vdw_refined 0.2 r_nbd_refined 0.193 r_xyhbond_nbd_refined 0.18 r_chiral_restr 0.091 r_symmetry_hbond_refined 0.087 r_bond_refined_d 0.013 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1385 Nucleic Acid Atoms Solvent Atoms 68 Heterogen Atoms 24
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling XSCALE data scaling CCP4 phasing