X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 4.2
Temperature 293.0
Details 22% PEG 1000, 0.1M phosphate-citrate, 0.2M Li2SO4, pH 4.2, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 76.18 α = 90
b = 129.92 β = 90
c = 183.87 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 2 Mirrors 2003-03-08
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE BM14 0.9786 ESRF BM14

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
2.67 53.64 99.0 0.085 0.064 -- 6.3 26303 26003 5.967 5.4 47.6
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)
2.67 2.74 99.0 0.176 0.133 5.4 3.5 1821

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 2.67 91.29 3.5 5.96 26303 24648 1322 98.81 0.231 0.17627 0.17329 0.2318 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 2.67 2.742 1821 96 1724 0.216 0.331 -- 95.5
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 23.058
Anisotropic B[1][1] 1.03
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.26
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.77
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 7.51
r_nbd_refined 0.19
r_scangle_it 2.217
r_mcbond_it 0.475
r_symmetry_hbond_refined 0.161
r_chiral_restr 0.072
r_mcangle_it 0.901
r_angle_refined_deg 1.378
r_angle_other_deg 0.856
r_symmetry_vdw_refined 0.246
r_scbond_it 1.334
r_gen_planes_refined 0.004
r_symmetry_vdw_other 0.208
r_nbd_other 0.235
r_xyhbond_nbd_refined 0.153
r_bond_refined_d 0.011
r_nbtor_other 0.104
r_bond_other_d 0.003
r_gen_planes_other 0.002
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.17
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6660
Nucleic Acid Atoms 0
Heterogen Atoms 84
Solvent Atoms 159

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.24
MOSFLM data reduction
CCP4 data scaling version: (SCALA)
SOLVE phasing
RESOLVE phasing