X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 9LDT 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.5291protein solution: 28 mg/ml protein, 100 mM Na-HEPES pH 7.5, 2.5 mM NADH, 1 mM Na Oxamate. Well solution: 12% PEG 8K, 100 mM Na HEPES pH 7.5, 100 mM Na Acetate, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties
Matthews coefficientSolvent content
2.3447.42

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 64.942α = 90
b = 158.542β = 90
c = 266.226γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATEMARRESEARCH1999-09-13MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSRS BEAMLINE PX7.2SRSPX7.2

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge 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
12.33092.30.08114.183.5112178111234422
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
2.32.4890.1955.363.5313397

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT9ldt2.320105591557790.50.200240.197220.25713RANDOM27.066
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]
-0.191.02-0.83
RMS Deviations
KeyRefinement Restraint Deviation
p_scangle_it3.949
p_scbond_it2.516
p_angle_deg1.815
p_mcangle_it1.544
p_mcbond_it0.843
p_xyhbond_nbd0.172
p_chiral_restr0.119
p_bond_d0.017
p_plane_restr0.006
p_angle_d
RMS Deviations
KeyRefinement Restraint Deviation
p_scangle_it3.949
p_scbond_it2.516
p_angle_deg1.815
p_mcangle_it1.544
p_mcbond_it0.843
p_xyhbond_nbd0.172
p_chiral_restr0.119
p_bond_d0.017
p_plane_restr0.006
p_angle_d
p_planar_d
p_hb_or_metal_coord
p_singtor_nbd
p_multtor_nbd
p_xhyhbond_nbd
p_planar_tor
p_staggered_tor
p_orthonormal_tor
p_transverse_tor
p_special_tor
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms20497
Nucleic Acid Atoms
Solvent Atoms653
Heterogen Atoms432

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing
REFMACrefinement