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Structure of Transhydrogenase (dI.S138A.NADH)2(dIII.NADPH)1 asymmetric complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1HZZ pdb entry 1HZZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 277 22-24% 8K-PEG, 60-140 mM (NH4)2SO4, 100 mM Mes, pH 6.0 and 10% glycerol in the presence of 50 mM NADH and 5 mM NADPH, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.65 53.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.3 α = 90 b = 74.11 β = 90 c = 205.22 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 ADSC QUANTUM 4 2004-02-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 0.934 ESRF ID14-1
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 3.2 45.93 98.9 0.072 0.072 13.4 3.9 18400 18400 2 75.5
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 3.2 3.37 99.2 0.326 4 3.9 2660
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1HZZ 3.2 45.93 2 16712 16712 1643 98.4 0.21852 0.21852 0.21338 0.2281 0.2723 0.2861 from pdb entry 1NM5 43.582
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] 0.63 4.27 -4.9
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.804 r_dihedral_angle_3_deg 15.681 r_dihedral_angle_4_deg 13.878 r_dihedral_angle_1_deg 6.894 r_scangle_it 2.66 r_angle_other_deg 2.001 r_scbond_it 1.642 r_mcangle_it 1.447 r_angle_refined_deg 1.217 r_mcbond_it 1.103
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.804 r_dihedral_angle_3_deg 15.681 r_dihedral_angle_4_deg 13.878 r_dihedral_angle_1_deg 6.894 r_scangle_it 2.66 r_angle_other_deg 2.001 r_scbond_it 1.642 r_mcangle_it 1.447 r_angle_refined_deg 1.217 r_mcbond_it 1.103 r_symmetry_hbond_refined 0.169 r_nbd_other 0.168 r_nbd_refined 0.163 r_xyhbond_nbd_refined 0.159 r_nbtor_refined 0.158 r_symmetry_vdw_other 0.121 r_nbtor_other 0.079 r_symmetry_vdw_refined 0.078 r_chiral_restr 0.059 r_mcbond_other 0.044 r_xyhbond_nbd_other 0.034 r_gen_planes_other 0.031 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6619 Nucleic Acid Atoms Solvent Atoms 2 Heterogen Atoms 136
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling