X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.8
Temperature 293.0
Details MPD, sodium acetate, pH 4.8, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 43.29 α = 90
b = 51.54 β = 95.27
c = 67.72 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2002-11-21
CCD MARRESEARCH -- 2002-09-14
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Si(111) monochromator crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID29 0.979 ESRF ID29
SYNCHROTRON MAX II BEAMLINE I711 1.13 MAX II I711

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
1.85 24.5 98.4 -- 0.089 -- 2.8 -- 25173 0.0 0.0 18.0
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)
1.85 1.95 99.7 -- 0.46 2.5 2.7 3511

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
SAD 1.85 24.04 0.0 0.0 -- 24247 1298 99.98 0.2027 0.20275 0.20087 0.23731 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 1.85 1.898 1782 94 1782 0.221 0.238 -- 99.7
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 16.598
Anisotropic B[1][1] 2.34
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.01
Anisotropic B[2][2] -0.96
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.38
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.233
r_scbond_it 1.897
r_mcangle_it 1.236
r_mcbond_it 0.65
r_symmetry_hbond_refined 0.217
r_symmetry_vdw_other 0.166
r_symmetry_vdw_refined 0.139
r_bond_refined_d 0.01
r_bond_other_d 0.002
r_angle_refined_deg 1.268
r_angle_other_deg 0.8
r_dihedral_angle_1_deg 4.991
r_chiral_restr 0.071
r_gen_planes_refined 0.005
r_gen_planes_other 0.002
r_nbd_refined 0.206
r_nbd_other 0.222
r_nbtor_other 0.084
r_xyhbond_nbd_refined 0.185
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2202
Nucleic Acid Atoms 0
Heterogen Atoms 32
Solvent Atoms 233

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
SOLVE/RESOLVE Structure Solution
REFMAC 5.1.24 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.24 refinement