X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 277.0
Details PEG4000, magnesium chloride, HEPES, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 62.13 α = 90
b = 62.13 β = 90
c = 147.87 γ = 90
Symmetry
Space Group P 43 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
2 100
3 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD OXFORD PX210 -- 2001-09-18
CCD ADSC QUANTUM 4 -- 2001-12-12
CCD OXFORD PX210 -- 2001-09-18
Diffraction Radiation
Monochromator Protocol
-- MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PHOTON FACTORY BEAMLINE BL-6A 0.96, 0.9778, 0.9785 Photon Factory BL-6A
SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.900 SPring-8 BL44XU
SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.900 SPring-8 BL44XU

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
1.8 57 99.2 -- -- -- -- 27518 27518 -- 0.0 --
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)
1.8 1.89 99.2 -- -- -- -- --

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
-- 1.8 20.0 -- 0.0 -- 26023 1363 98.86 -- 0.22756 0.22649 0.24764 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 1.8 1.846 -- 94 1884 0.269 0.321 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 24.188
Anisotropic B[1][1] -0.05
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.05
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.1
RMS Deviations
Key Refinement Restraint Deviation
r_chiral_restr 0.087
r_mcangle_it 1.61
r_gen_planes_refined 0.004
r_scbond_it 2.324
r_dihedral_angle_1_deg 4.123
r_angle_refined_deg 1.331
r_nbd_refined 0.21
r_scangle_it 4.088
r_symmetry_vdw_refined 0.218
r_xyhbond_nbd_refined 0.127
r_symmetry_hbond_refined 0.216
r_bond_refined_d 0.009
r_mcbond_it 0.836
r_dihedral_angle_3_deg 18.209
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1898
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 132

Software

Software
Software Name Purpose
MLPHARE phasing
REFMAC refinement version: 5.0
MOSFLM data reduction
CCP4 data scaling version: (SCALA)