X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 295.0
Details sodium-potassium buffer, pH 8.00, VAPOR DIFFUSION, HANGING DROP, temperature 295.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 41.31 α = 90
b = 61.64 β = 90
c = 89.25 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH MIRRORS 2001-08-07
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 5ID-B -- APS 5ID-B

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
0.85 15 100.0 0.052 -- -- 5.7 200302 200302 -- -3.0 --
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)
0.85 0.87 100.0 0.42 -- 3.8 5.2 13237

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 0.85 10.0 -- 0.0 199928 199928 6015 97.0 -- -- 0.091 0.112 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 0.85 0.878 17797 534 -- 0.18 0.197 -- 97.06
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Anisotropic
Mean Isotropic B 12.2
Anisotropic B[1][1] 0.9345
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.9147
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.7803
RMS Deviations
Key Refinement Restraint Deviation
s_similar_dist 0.0
s_zero_chiral_vol 0.093
s_angle_d 0.021
s_anti_bump_dis_restr 0.035
s_bond_d 0.011
s_from_restr_planes 0.012
s_non_zero_chiral_vol 0.098
s_similar_adp_cmpnt 0.04
s_rigid_bond_adp_cmpnt 0.023
s_approx_iso_adps 0.071
Coordinate Error
Parameter Value
Number Disordered Residues 448.0
Occupancy Sum Hydrogen 1684.0
Occupancy Sum Non Hydrogen 2507.95
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2026
Nucleic Acid Atoms 0
Heterogen Atoms 41
Solvent Atoms 566

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMORE Structure Solution
SHELXL-97 Structure Refinement
Software
Software Name Purpose
DENZO data collection
SHELXL-97 refinement
AMORE model building
SCALEPACK data reduction