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The crystal structure of Trypanosoma brucei N5, N10- methylenetetrahydrofolate dehydrogenase-cyclohydrolase (FolD) complexed with NADP cofactor and inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4A26 PDB ENTRY 4A26
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 20 % PEG 6000, 0.1 M CITRIC ACID PH 5.0
Crystal Properties Matthews coefficient Solvent content 2.26 45.56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.22 α = 90 b = 77.325 β = 90 c = 128.908 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 CCD MARRESEARCH 2011-02-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 ESRF ID23-2
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 2.05 64.45 100 0.11 9.1 3.8 37335 2
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 2.05 2.16 100 0.48 2.7 3.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation 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) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 4A26 2.05 64.45 35419 1862 99.93 0.18273 0.18035 0.1881 0.22778 0.2319 RANDOM 25.324
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] -0.03 0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.04 r_dihedral_angle_4_deg 15.802 r_dihedral_angle_3_deg 14.085 r_dihedral_angle_1_deg 5.478 r_angle_refined_deg 1.47 r_scbond_it 1.163 r_mcangle_it 1.095 r_angle_other_deg 0.893 r_mcbond_it 0.635 r_mcbond_other 0.634
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.04 r_dihedral_angle_4_deg 15.802 r_dihedral_angle_3_deg 14.085 r_dihedral_angle_1_deg 5.478 r_angle_refined_deg 1.47 r_scbond_it 1.163 r_mcangle_it 1.095 r_angle_other_deg 0.893 r_mcbond_it 0.635 r_mcbond_other 0.634 r_chiral_restr 0.074 r_bond_refined_d 0.01 r_gen_planes_other 0.009 r_gen_planes_refined 0.007 r_bond_other_d 0.002 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_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4450 Nucleic Acid Atoms Solvent Atoms 322 Heterogen Atoms 123
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing