X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
otherPfDTD-iodide model (not deposited)

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP29325% PEG 3350. 0.1 MES , pH 6.2-6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
1.9737.65

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 51.174α = 72.86
b = 53.005β = 76.45
c = 90.432γ = 88.32
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 225 mm CCD2007-12-13MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE BM140.97ESRFBM14

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
12.72581.30.086.92.719638
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)
2.72.844.90.3872.41080

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 REPLACEMENTTHROUGHOUTPfDTD-iodide model (not deposited)2.72019597101381.120.2140.210.285RANDOM57.401
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]
3.05-0.53-5.23-4.360.043.78
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg44.347
r_dihedral_angle_4_deg19.455
r_dihedral_angle_3_deg18.961
r_dihedral_angle_1_deg6.722
r_scangle_it1.495
r_angle_refined_deg1.283
r_mcangle_it0.951
r_scbond_it0.914
r_mcbond_it0.522
r_nbtor_refined0.316
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg44.347
r_dihedral_angle_4_deg19.455
r_dihedral_angle_3_deg18.961
r_dihedral_angle_1_deg6.722
r_scangle_it1.495
r_angle_refined_deg1.283
r_mcangle_it0.951
r_scbond_it0.914
r_mcbond_it0.522
r_nbtor_refined0.316
r_symmetry_hbond_refined0.311
r_symmetry_vdw_refined0.267
r_nbd_refined0.221
r_xyhbond_nbd_refined0.163
r_chiral_restr0.085
r_bond_refined_d0.01
r_gen_planes_refined0.004
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms7458
Nucleic Acid Atoms
Solvent Atoms10
Heterogen Atoms81

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
MOLREPphasing
REFMACrefinement
PDB_EXTRACTdata extraction
HKL-2000data reduction