X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Sitting Drop
pH 6.2
Temperature 296.0
Details PEG 8000, 0.1 M Na/K phosphate, 0.2 M NaCl, pH 6.2, sitting drop, temperature 296K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 91.78 α = 90
b = 92.75 β = 90
c = 190.31 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 93.2
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2005-07-16
Diffraction Radiation
Monochromator Protocol
Single crystal Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL11-1 0.97945 SSRL BL11-1

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
2.7 50 97.5 0.131 -- -- -- -- 45395 -- 0.0 70.8
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)
2.7 2.8 99.8 0.579 -- 2.17 -- 4468

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 2.7 42.33 -- 0.0 42077 42077 2216 97.57 -- 0.238 0.235 0.284 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 2.7 2.77 -- 176 3110 0.35 0.409 -- 99.76
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 55.349
Anisotropic B[1][1] -3.44
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.26
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.17
RMS Deviations
Key Refinement Restraint Deviation
r_symmetry_hbond_refined 0.244
r_gen_planes_other 0.001
r_dihedral_angle_4_deg 16.609
r_nbd_refined 0.238
r_dihedral_angle_1_deg 7.612
r_nbd_other 0.215
r_angle_refined_deg 1.576
r_nbtor_refined 0.188
r_dihedral_angle_2_deg 33.958
r_symmetry_vdw_other 0.277
r_chiral_restr 0.086
r_scbond_it 5.145
r_nbtor_other 0.091
r_xyhbond_nbd_other 0.083
r_mcbond_it 2.452
r_angle_other_deg 0.907
r_mcangle_it 2.847
r_bond_refined_d 0.015
r_mcbond_other 0.324
r_dihedral_angle_3_deg 15.508
r_scangle_it 6.595
r_symmetry_vdw_refined 0.312
r_bond_other_d 0.007
r_gen_planes_refined 0.005
r_xyhbond_nbd_refined 0.172
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 10234
Nucleic Acid Atoms 0
Heterogen Atoms 28
Solvent Atoms 36

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
PHASER phasing
REFMAC refinement
PDB_EXTRACT data extraction version: 3.004
HKL-2000 data collection
HKL-2000 data reduction