X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 293.15
Details HEPES, PEG 6000, LiCl, DTT, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293.15K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 66.39 α = 110.96
b = 78.47 β = 97.6
c = 88.23 γ = 111.39
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 Bent cylindrical Si-mirror (Rh coating) 2001-12-15
Diffraction Radiation
Monochromator Protocol
Si(111) double-crystal MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 14-BM-D 0.9797, 0.9799,0.9426 APS 14-BM-D

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
2 50 97.5 0.07 -- -- 1.9 99719 97218 0.0 0.0 18.1
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)
2.0 2.03 96.5 0.297 -- 4.2 1.6 4777

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 2.0 27.08 -- 0.0 99719 97218 2410 97.4 0.213692 0.213692 0.213 0.24 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 2.0 2.09 -- 308 11672 0.25 0.298 0.017 96.4
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 31.4
Anisotropic B[1][1] -6.0
Anisotropic B[1][2] 2.05
Anisotropic B[1][3] 2.84
Anisotropic B[2][2] 4.08
Anisotropic B[2][3] 4.85
Anisotropic B[3][3] 1.93
RMS Deviations
Key Refinement Restraint Deviation
c_mcbond_it 1.42
c_bond_d 0.006
c_scbond_it 2.13
c_mcangle_it 2.18
c_angle_deg 1.4
c_dihedral_angle_d 25.0
c_scangle_it 2.98
c_improper_angle_d 0.83
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.25
Luzzati Sigma A (Observed) 0.16
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.29
Luzzati Sigma A (R-Free Set) 0.21
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 10524
Nucleic Acid Atoms 0
Heterogen Atoms 30
Solvent Atoms 1025

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
SHELX model building
CNS refinement version: 1.1
SHELX phasing