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Structure of transhydrogenase (dI.H2NADH)2(dIII.NADP+)1 asymmetric complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1U2D PDB ENTRY 1U2D
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 8 277 18% PEG 4000, 10% glycerol, 100mM Tris, 75mM lithium sulphate, VAPOR DIFFUSION, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.38 48.36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.199 α = 90 b = 101.025 β = 90 c = 131.721 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 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-3 0.93100 ESRF ID14-3
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.6 80.163 92.8 0.073 0.073 7.7 3.8 27548
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.6 2.74 94.4 0.227 0.227 3.3 3.1 4046
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 1U2D 2.6 80.06 27507 1396 91.9 0.222 0.219 0.2258 0.275 0.2782 RANDOM 38.228
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] -0.34 -0.91 1.25
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.147 r_dihedral_angle_3_deg 14.661 r_dihedral_angle_4_deg 14.041 r_dihedral_angle_1_deg 7.606 r_angle_refined_deg 1.252 r_mcangle_it 1.149 r_mcbond_it 0.974 r_scangle_it 0.97 r_angle_other_deg 0.934 r_scbond_it 0.619
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.147 r_dihedral_angle_3_deg 14.661 r_dihedral_angle_4_deg 14.041 r_dihedral_angle_1_deg 7.606 r_angle_refined_deg 1.252 r_mcangle_it 1.149 r_mcbond_it 0.974 r_scangle_it 0.97 r_angle_other_deg 0.934 r_scbond_it 0.619 r_nbtor_refined 0.147 r_nbd_refined 0.142 r_mcbond_other 0.135 r_xyhbond_nbd_refined 0.127 r_nbd_other 0.124 r_symmetry_vdw_other 0.108 r_symmetry_hbond_refined 0.095 r_nbtor_other 0.079 r_chiral_restr 0.064 r_symmetry_vdw_refined 0.063 r_bond_refined_d 0.008 r_gen_planes_refined 0.003 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6899 Nucleic Acid Atoms Solvent Atoms 27 Heterogen Atoms 156
Software Software Software Name Purpose SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction MOSFLM data reduction CCP4 data scaling