X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.2
Temperature 295.0
Details PEG 8000, imidazole-HCl and DTT, pH 7.2, VAPOR DIFFUSION, SITTING DROP at 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 65.1 α = 90
b = 106 β = 108
c = 103.5 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 93
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 1999-02-03
Diffraction Radiation
Monochromator Protocol
Double crystal MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 5.0.2 0.9799, 0.9801, 0.9648 ALS 5.0.2

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
1.75 50 87.9 0.058 -- -- 2.0 229603 229603 0.0 -3.0 15.9
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)
1.75 1.78 47.3 0.475 -- 2.4 2.0 --

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 1.75 50.0 -- 0.0 -- 119759 11992 89.1 -- -- 0.1996 0.2164 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 1.75 1.86 11534 1172 10362 0.256 0.288 0.008 51.6
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 19.2
Anisotropic B[1][1] -0.8
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.09
Anisotropic B[2][2] 2.97
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.17
RMS Deviations
Key Refinement Restraint Deviation
c_scangle_it 2.12
c_scbond_it 1.41
c_mcangle_it 1.3
c_mcbond_it 0.79
c_improper_angle_d 0.81
c_dihedral_angle_d 22.3
c_angle_deg 1.3
c_bond_d 0.006
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.2
Luzzati Sigma A (Observed) 0.16
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.23
Luzzati Sigma A (R-Free Set) 0.19
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 9014
Nucleic Acid Atoms 0
Heterogen Atoms 26
Solvent Atoms 744

Software

Computing
Computing Package Purpose
ADX, DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
SOLVE, SHARP, ARP/WARP Structure Solution
CNS 0.9 Structure Refinement
Software
Software Name Purpose
CNS version: 0.9 refinement
ARP/WARP model building
SHARP model building
SOLVE model building