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Pteridine Reductase 1 (PTR1) from Trypanosoma Brucei in complex with NADP and DDD00066641
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2C7V PDB ENTRY 2C7V
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6 1.8M NA ACETATE, 0.1M CITRATE BUFFER PH6.0
Crystal Properties Matthews coefficient Solvent content 1.9 38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.479 α = 90 b = 90.822 β = 115.6 c = 82.616 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 IMAGE PLATE RIGAKU IMAGE PLATE MIRRORS 2008-07-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007
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 1.9 20 93 0.04 16 2.4 72743
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 75.1 0.39 3 1.7
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 2C7V 1.9 20 69014 3654 93.1 0.156 0.154 0.1699 0.203 0.218 RANDOM 22.64
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] -1.58 -0.64 2.19 -1.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.993 r_dihedral_angle_4_deg 19.167 r_dihedral_angle_3_deg 13.846 r_dihedral_angle_1_deg 5.843 r_scangle_it 2.6 r_scbond_it 1.804 r_angle_refined_deg 1.444 r_mcangle_it 1.085 r_mcbond_it 0.726 r_nbtor_refined 0.296
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.993 r_dihedral_angle_4_deg 19.167 r_dihedral_angle_3_deg 13.846 r_dihedral_angle_1_deg 5.843 r_scangle_it 2.6 r_scbond_it 1.804 r_angle_refined_deg 1.444 r_mcangle_it 1.085 r_mcbond_it 0.726 r_nbtor_refined 0.296 r_nbd_refined 0.206 r_symmetry_vdw_refined 0.194 r_symmetry_hbond_refined 0.189 r_xyhbond_nbd_refined 0.186 r_chiral_restr 0.089 r_bond_refined_d 0.014 r_gen_planes_refined 0.005 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_mcangle_other r_scbond_other 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 7410 Nucleic Acid Atoms Solvent Atoms 1146 Heterogen Atoms 268
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing