X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.4
Temperature 293.0
Details 6.7 mg/ml protein, 6.7 mM Tris, 20% MPD, 0.07 M sodium acetate, 0.013 M calcium chloride, pH 7.4, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 166.98 α = 90
b = 223.94 β = 90
c = 395.87 γ = 90
Symmetry
Space Group I 2 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2010-09-27
Diffraction Radiation
Monochromator Protocol
ASYMMETRIC CUT SINGLE CRYSTAL SI(220) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 5.0.3 -- ALS 5.0.3

Data Collection

Overall
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
3 67.29 98.6 0.201 0.201 -- 8.8 145678 145678 0.0 -3.0 59.84
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
3.0 3.16 94.3 0.809 0.809 0.9 5.1 20140

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MOLECULAR REPLACEMENT 3.0 67.29 -- 0.0 145355 145355 7283 -- 0.1711 0.1711 0.1701 0.1894 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 3.0 3.08 -- 477 9508 0.2371 0.2554 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 32.168
Anisotropic B[1][1] 0.6073
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.9346
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.3273
RMS Deviations
Key Refinement Restraint Deviation
t_other_torsion 20.38
t_angle_deg 1.17
t_improper_torsion 1.007
t_bond_d 0.0089
t_omega_torsion 2.75
t_trig_c_planes 0.0073
t_gen_planes 0.0144
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.32
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 36408
Nucleic Acid Atoms 0
Heterogen Atoms 12
Solvent Atoms 606

Software

Software
Software Name Purpose
MOSFLM data reduction
SCALA data scaling version: 3.3.18
PHASER phasing version: 2.2.4
BUSTER-TNT refinement
PDB_EXTRACT data extraction version: 3.10
BOS data collection version: beamline control software
BUSTER refinement version: 2.8.0