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Crystal structure of HGPRT-ase from Leishmania tarentolae in complex with GMP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1TC1 PDB ENTRY 1TC1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 291 PEG 4000, i-propanol, glycerol, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.3 46.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.104 α = 90 b = 85.443 β = 90 c = 87.598 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 IMAGE PLATE MARRESEARCH 2001-08-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON LNLS BEAMLINE D03B-MX1 1.53700 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 2.1 48.4 92.8 24801 24231 1
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 2.1 2.16 96.8 5.5
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 PDB ENTRY 1TC1 2.1 48.22 24801 24231 1276 94.98 0.17549 0.17336 0.1767 0.21525 0.218 RANDOM 14.486
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] -3.84 1.78 2.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 13.136 r_dihedral_angle_1_deg 6.316 r_scangle_it 4.491 r_scbond_it 3.035 r_angle_refined_deg 2.028 r_mcangle_it 2.012 r_mcbond_it 1.2 r_nbd_refined 0.215 r_symmetry_vdw_refined 0.175 r_xyhbond_nbd_refined 0.174
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 13.136 r_dihedral_angle_1_deg 6.316 r_scangle_it 4.491 r_scbond_it 3.035 r_angle_refined_deg 2.028 r_mcangle_it 2.012 r_mcbond_it 1.2 r_nbd_refined 0.215 r_symmetry_vdw_refined 0.175 r_xyhbond_nbd_refined 0.174 r_symmetry_hbond_refined 0.138 r_chiral_restr 0.134 r_bond_refined_d 0.024 r_gen_planes_refined 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2633 Nucleic Acid Atoms Solvent Atoms 243 Heterogen Atoms 48
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing