X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.5
Temperature 296.0
Details 24% PEG 3350, 0.1M Tris, 0.2M Ammonium acetate, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 296K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 121.8 α = 90
b = 121.5 β = 90.06
c = 128.26 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2010-02-01
Diffraction Radiation
Monochromator Protocol
Rotated-inclined double-crystal monochromator, Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SPRING-8 BEAMLINE BL41XU 1.0000 SPring-8 BL41XU

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
2.8 44.18 99.3 0.068 -- -- 3.7 91463 91463 0.0 0.0 77.186
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)
2.8 2.95 99.4 0.349 -- 3.5 3.7 13339

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 2.8 44.18 -- 0.0 86877 86877 4572 99.28 0.20061 0.20061 0.19837 0.24293 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 2.8 2.872 6722 311 6411 0.287 0.369 -- 99.38
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 76.336
Anisotropic B[1][1] 0.27
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.63
Anisotropic B[2][2] 1.48
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.74
RMS Deviations
Key Refinement Restraint Deviation
r_mcangle_it 0.922
r_scangle_it 3.006
r_scbond_it 1.804
r_angle_refined_deg 1.333
r_dihedral_angle_3_deg 18.755
r_dihedral_angle_1_deg 6.085
r_bond_refined_d 0.011
r_gen_planes_refined 0.005
r_dihedral_angle_2_deg 38.064
r_chiral_restr 0.087
r_mcbond_it 0.457
r_dihedral_angle_4_deg 17.303
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 23964
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 89

Software

Software
Software Name Purpose
BSS data collection
MOLREP phasing
REFMAC refinement version: 5.5.0109
MOSFLM data reduction
SCALA data scaling