X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 4
Temperature 293.0
Details 40%v/v PEG 300, 100mM Phosphate Citrate, pH 4.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 79.67 α = 90
b = 92.83 β = 90
c = 36.79 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 2002-09-29
Diffraction Radiation
Monochromator Protocol
1.8 SAD using Sulphur and Xenon
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ELETTRA BEAMLINE 5.2R 1.8 ELETTRA 5.2R

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
2.34 30.86 98.96 -- 0.052 -- -- -- 5398 2.0 2.0 39.55
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)
2.342 2.402 97.3 -- 0.116 5.1 -- --

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
SAD Xenon/Sulphur 2.34 30.86 2.0 2.0 -- 5398 579 98.96 -- 0.21614 0.2141 0.23556 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 2.342 2.402 -- 41 357 0.301 0.247 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 39.556
Anisotropic B[1][1] 2.61
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.28
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.33
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 5.368
r_scbond_it 2.928
r_mcangle_it 1.972
r_mcbond_it 1.058
r_symmetry_hbond_refined 0.235
r_symmetry_vdw_other 0.303
r_symmetry_vdw_refined 0.216
r_bond_refined_d 0.022
r_bond_other_d 0.0
r_angle_refined_deg 1.838
r_angle_other_deg 3.788
r_dihedral_angle_1_deg 6.476
r_chiral_restr 0.112
r_gen_planes_refined 0.011
r_gen_planes_other 0.013
r_nbd_refined 0.222
r_nbd_other 0.279
r_nbtor_other 0.11
r_xyhbond_nbd_refined 0.331
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 922
Nucleic Acid Atoms 0
Heterogen Atoms 1
Solvent Atoms 30

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
SHARP Structure Solution
REFMAC 5.1.27 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.27 refinement