X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop Nanodrop
pH 5
Temperature 293.0
Details 2.4 M Ammonium Sulfate; 0.1 M Citric Acid pH 5.0, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 293K
Method Vapor Diffusion Sitting Drop Nanodrop
pH 9
Temperature 293.0
Details 2.4 M Ammonium Sulfate; 0.1 M Bicine pH 9.0, VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 92.36 α = 90
b = 92.36 β = 90
c = 135.83 γ = 120
Symmetry
Space Group P 65 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2002-11-24
CCD APS-1 Flat mirror,single crystal Si(311) bent monochromator 2002-10-26
Diffraction Radiation
Monochromator Protocol
-- MAD
-- MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL11-1 -- SSRL BL11-1
SYNCHROTRON APS BEAMLINE 19-BM 0.979, 0.991 APS 19-BM

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
1.7 39.4 94.9 -- 0.086 -- 8.2 36314 36314 -- -- --
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)
1.7 1.79 72.8 -- 0.643 1.7 3.4 3969

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
MAD 1.7 39.4 -- -- -- 34513 1800 94.79 -- 0.14651 0.14516 0.17242 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 1.7 1.744 -- 86 1755 0.285 0.305 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 13.858
Anisotropic B[1][1] 1.23
Anisotropic B[1][2] 0.62
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 1.23
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.85
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.016
r_mcbond_it 1.187
r_angle_refined_deg 1.522
r_angle_other_deg 0.812
r_scangle_it 7.91
r_symmetry_vdw_other 0.325
r_scbond_it 5.087
r_mcangle_it 2.176
r_chiral_restr 0.096
r_symmetry_hbond_refined 0.295
r_gen_planes_other 0.008
r_dihedral_angle_1_deg 5.802
r_nbd_other 0.252
r_nbd_refined 0.21
r_bond_other_d 0.002
r_nbtor_other 0.082
r_gen_planes_refined 0.008
r_xyhbond_nbd_refined 0.219
r_symmetry_vdw_refined 0.149
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1922
Nucleic Acid Atoms 0
Heterogen Atoms 45
Solvent Atoms 358

Software

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