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Crystal structure of a diaminohydroxyphosphoribosylaminopyrimidine deaminase/ 5-amino-6-(5-phosphoribosylamino)uracil reductase (tm1828) from thermotoga maritima at 1.80 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP, NANODROP 7.5 277 5.0% PEG-3000, 10.0% Glycerol, 30.0% PEG-400, 0.1M HEPES, pH 7.5, VAPOR DIFFUSION, SITTING DROP, NANODROP, temperature 277K 2 VAPOR DIFFUSION, SITTING DROP, NANODROP 7.5 277 5.0% PEG-3000, 10.0% Glycerol, 30.0% PEG-400, 0.1M HEPES, pH 7.5, VAPOR DIFFUSION, SITTING DROP, NANODROP, temperature 277K
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 104.18 α = 90 b = 104.18 β = 90 c = 145.89 γ = 90
Symmetry Space Group I 4 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 100 CCD ADSC QUANTUM 315 Flat mirror (vertical focusing) 2006-07-17 M MAD 2 2
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 1.000001 SSRL BL11-1 2 SYNCHROTRON SSRL BEAMLINE BL11-1 0.979170, 0.918370, 0.978913 SSRL BL11-1
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 1.8 28.341 99.7 0.072 14.96 4.945 37367 30.526
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) 1 1.8 1.86 97.7 0.719 1.71 3.711 5938
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 MAD THROUGHOUT 1.8 28.341 37365 1877 99.84 0.162 0.16 0.1692 0.195 0.1978 RANDOM 28.964
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] 0.46 0.46 -0.92
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.676 r_dihedral_angle_4_deg 14.474 r_dihedral_angle_3_deg 12.044 r_scangle_it 7.869 r_dihedral_angle_1_deg 5.695 r_scbond_it 5.473 r_mcangle_it 3.353 r_mcbond_it 2.415 r_angle_refined_deg 1.69 r_angle_other_deg 0.999
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.676 r_dihedral_angle_4_deg 14.474 r_dihedral_angle_3_deg 12.044 r_scangle_it 7.869 r_dihedral_angle_1_deg 5.695 r_scbond_it 5.473 r_mcangle_it 3.353 r_mcbond_it 2.415 r_angle_refined_deg 1.69 r_angle_other_deg 0.999 r_mcbond_other 0.641 r_symmetry_vdw_other 0.257 r_nbd_refined 0.209 r_nbd_other 0.19 r_xyhbond_nbd_refined 0.19 r_nbtor_refined 0.188 r_symmetry_hbond_refined 0.177 r_symmetry_vdw_refined 0.148 r_chiral_restr 0.099 r_nbtor_other 0.087 r_bond_refined_d 0.017 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2697 Nucleic Acid Atoms Solvent Atoms 205 Heterogen Atoms 98
Software Software Software Name Purpose MolProbity model building SHELX phasing REFMAC refinement XSCALE data scaling PDB_EXTRACT data extraction XDS data reduction SHARP phasing