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Crystal structure of human guanosine monophosphate reductase 2 GMPR2 in complex with IMP and NADPH
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2BZN PDB ENTRY 2BZN
Crystallization Crystal Properties Matthews coefficient Solvent content 2.37 47.68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 131.676 α = 90 b = 141.366 β = 90 c = 164.318 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 2005-08-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 BESSY 14.1
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 1.7 10 99.3 0.09 14.5 6.6 332307 -3
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 1.7 1.8 99.7 0.51 3.9 6.6
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 2BZN 1.7 10 315592 16714 99.9 0.165 0.163 0.1745 0.206 0.2138 RANDOM 23.35
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] 0.36 0.64 -1.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.351 r_dihedral_angle_3_deg 14.082 r_dihedral_angle_4_deg 13.295 r_dihedral_angle_1_deg 6.403 r_scangle_it 5.471 r_scbond_it 4.221 r_mcangle_it 2.453 r_mcbond_it 2.155 r_angle_refined_deg 1.76 r_angle_other_deg 0.889
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.351 r_dihedral_angle_3_deg 14.082 r_dihedral_angle_4_deg 13.295 r_dihedral_angle_1_deg 6.403 r_scangle_it 5.471 r_scbond_it 4.221 r_mcangle_it 2.453 r_mcbond_it 2.155 r_angle_refined_deg 1.76 r_angle_other_deg 0.889 r_symmetry_vdw_other 0.268 r_nbd_refined 0.215 r_nbd_other 0.195 r_xyhbond_nbd_refined 0.184 r_nbtor_refined 0.182 r_symmetry_hbond_refined 0.181 r_symmetry_vdw_refined 0.157 r_chiral_restr 0.103 r_nbtor_other 0.088 r_bond_refined_d 0.019 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_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 19909 Nucleic Acid Atoms Solvent Atoms 2569 Heterogen Atoms 520
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling