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Complex of Trypanosoma cruzi ribose 5-phosphate isomerase type B with ribose 5-phosphate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3K7O
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 9 293 20% (w/v) PEG 550 monomethyl ether, 0.1 M NaCl, 0.1 M Bicine, pH 9, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.55 51.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 92.302 α = 90 b = 92.302 β = 90 c = 93.584 γ = 90
Symmetry Space Group P 21 21 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 4 2009-02-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 0.933 ESRF ID14-2
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 1.9 93.659 99.3 63050
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 1.9 2 99.1 0.294 2.5
Refinement Statistics Diffraction ID Structure Solution 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT 3K7O 1.9 40 63015 3203 99 0.172 0.17 0.1702 0.196 0.1962 17.18
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] 0.16 0.33 -0.5
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.766 r_dihedral_angle_4_deg 17.452 r_dihedral_angle_3_deg 11.38 r_dihedral_angle_1_deg 4.75 r_scangle_it 2.343 r_scbond_it 1.398 r_angle_refined_deg 1.088 r_mcangle_it 0.841 r_mcbond_it 0.502 r_nbtor_refined 0.3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.766 r_dihedral_angle_4_deg 17.452 r_dihedral_angle_3_deg 11.38 r_dihedral_angle_1_deg 4.75 r_scangle_it 2.343 r_scbond_it 1.398 r_angle_refined_deg 1.088 r_mcangle_it 0.841 r_mcbond_it 0.502 r_nbtor_refined 0.3 r_symmetry_vdw_refined 0.221 r_nbd_refined 0.194 r_xyhbond_nbd_refined 0.122 r_chiral_restr 0.074 r_symmetry_hbond_refined 0.06 r_bond_refined_d 0.008 r_gen_planes_refined 0.003 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other 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 4664 Nucleic Acid Atoms Solvent Atoms 474 Heterogen Atoms 56
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction PHASER phasing