2FR8

Structure of transhydrogenase (dI.R127A.NAD+)2(dIII.NADP+)1 asymmetric complex


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1HZZpdb entry 1HZZ

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP627716-20% 8K-PEG, 20-150 mM (NH4)2SO4, 100 mM Mes, pH 6.0 and 10% glycerol in the presence of 50 mM NAD+ and 5 mM NADP+, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
2.1242.07

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 63.13α = 90
b = 70.33β = 90
c = 195.14γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 42004-07-28MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-40.933ESRFID14-4

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)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
12.647.798.50.1170.11711.44.92722227222241.29
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)RedundancyNumber Unique Reflections (All)
2.62.7492.10.4420.4422.22.83653

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (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-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTpdb entry 1HZZ2.641.322578125781138198.540.253280.253280.250590.30388RANDOM48.122
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]
2.51-1.53-0.97
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg42.773
r_dihedral_angle_4_deg14.477
r_dihedral_angle_3_deg14.449
r_dihedral_angle_1_deg5.213
r_angle_refined_deg1.163
r_angle_other_deg0.849
r_mcangle_it0.681
r_scangle_it0.56
r_mcbond_it0.394
r_scbond_it0.338
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg42.773
r_dihedral_angle_4_deg14.477
r_dihedral_angle_3_deg14.449
r_dihedral_angle_1_deg5.213
r_angle_refined_deg1.163
r_angle_other_deg0.849
r_mcangle_it0.681
r_scangle_it0.56
r_mcbond_it0.394
r_scbond_it0.338
r_symmetry_vdw_other0.184
r_nbd_refined0.18
r_nbd_other0.177
r_xyhbond_nbd_refined0.174
r_nbtor_refined0.161
r_symmetry_hbond_refined0.153
r_symmetry_vdw_refined0.145
r_nbtor_other0.083
r_xyhbond_nbd_other0.061
r_chiral_restr0.058
r_mcbond_other0.025
r_bond_refined_d0.007
r_bond_other_d0.006
r_gen_planes_refined0.003
r_gen_planes_other0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms6468
Nucleic Acid Atoms
Solvent Atoms56
Heterogen Atoms75

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XDSdata scaling
EPMRphasing