X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1EX1PDB entries: 1EX1, 1IIX, 1J8V, 1LQ2, 1X38
experimental modelPDB 1IIXPDB entries: 1EX1, 1IIX, 1J8V, 1LQ2, 1X38
experimental modelPDB 1J8VPDB entries: 1EX1, 1IIX, 1J8V, 1LQ2, 1X38
experimental modelPDB 1LQ2PDB entries: 1EX1, 1IIX, 1J8V, 1LQ2, 1X38
experimental modelPDB 1X38PDB entries: 1EX1, 1IIX, 1J8V, 1LQ2, 1X38

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP4.92910.1M sodium acetate, 30-33 % PEG 1000, pH 4.9, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties
Matthews coefficientSolvent content
2.3748.13

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 58.385α = 79.79
b = 73.085β = 69.61
c = 83.567γ = 88.25
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELPSI PILATUS 6M2007-04-20MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X06SA0.99989SLSX06SA

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
11.44390.80.08413.257227962227962-320.9
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)
11.41.553.70.6052.652.6625215

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (F)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB entries: 1EX1, 1IIX, 1J8V, 1LQ2, 1X381.442.8351.992279621145390.850.1290.1270.166random18.81
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]
2.262-5.862.47-1.195-2.03-1.251
RMS Deviations
KeyRefinement Restraint Deviation
f_dihedral_angle_d17.054
f_angle_d0.967
f_chiral_restr0.216
f_bond_d0.007
f_plane_restr0.006
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms9526
Nucleic Acid Atoms
Solvent Atoms1388
Heterogen Atoms65

Software

Software
Software NamePurpose
PHENIXrefinement
MAR345data collection
XDSdata reduction
XSCALEdata scaling
PHASERphasing
BUCCANEERphasing
ARP/wARPmodel building
RESOLVEphasing