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Structure of Triosephosphate Isomerase from Cryptosporidium Parvum at 1.55A Resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2VFD PDB entry 2VFD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 290 MD PACT SCREEN G8: 20% PEG 3350, 100MM BISTRISPROPANE PH 7.5, 200MM NA2SO4, CRPAA.01119.A AT 75 MG/ML, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 290K
Crystal Properties Matthews coefficient Solvent content 2.56 52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.56 α = 90 b = 71.93 β = 106.47 c = 75.83 γ = 90
Symmetry Space Group P 1 21 1
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 315r 2009-10-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.3 0.976484 ALS 5.0.3
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 1.55 20 99 0.077 12.93 3.6 80143 79305 -3 16.19
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 1.55 1.59 91.3 0.364 2.9 2.3 5877
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 (All) 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 2VFD 1.55 20 79284 79284 3990 99 0.159 0.159 0.157 0.1685 0.188 0.1962 RANDOM 9.94
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] 0.98 0.44 -0.69 -0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.904 r_dihedral_angle_3_deg 12.634 r_dihedral_angle_4_deg 12.043 r_dihedral_angle_1_deg 6.041 r_scangle_it 3.839 r_scbond_it 2.362 r_angle_refined_deg 1.415 r_mcangle_it 1.25 r_angle_other_deg 0.911 r_mcbond_it 0.716
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.904 r_dihedral_angle_3_deg 12.634 r_dihedral_angle_4_deg 12.043 r_dihedral_angle_1_deg 6.041 r_scangle_it 3.839 r_scbond_it 2.362 r_angle_refined_deg 1.415 r_mcangle_it 1.25 r_angle_other_deg 0.911 r_mcbond_it 0.716 r_mcbond_other 0.225 r_chiral_restr 0.085 r_bond_refined_d 0.014 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3803 Nucleic Acid Atoms Solvent Atoms 845 Heterogen Atoms 14
Software Software Software Name Purpose BOS data collection PHASER phasing REFMAC refinement XDS data reduction XSCALE data scaling