X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 323.0
Details PEG 10K, Tris-HCl, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 323K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 85.74 α = 102.01
b = 85.63 β = 101.53
c = 97.08 γ = 112.6
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) 2001-03-16
Diffraction Radiation
Monochromator Protocol
Si(111) double-crystal monochromator MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 14-BM-D 1.7401, 1.7372 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
2.9 50 83.2 0.14 0.14 -- 12.0 87507 87507 -- -3.0 58.127
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)
2.9 3.0 10.0 0.459 0.459 3.0 10.0 53028

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 2.9 50.0 1.0 1.0 87507 79364 7535 83.3 -- -- 0.271 0.365 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 2.9 3.08 10105 1110 -- 0.336 0.405 0.012 63.9
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model isotropic
Mean Isotropic B 33.6
Anisotropic B[1][1] 4.88
Anisotropic B[1][2] -2.86
Anisotropic B[1][3] -2.02
Anisotropic B[2][2] 15.93
Anisotropic B[2][3] 2.91
Anisotropic B[3][3] 3.65
RMS Deviations
Key Refinement Restraint Deviation
c_dihedral_angle_d 23.5
c_angle_deg 2.1
c_improper_angle_d 1.18
c_bond_d 0.011
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.44
Luzzati Sigma A (Observed) 0.38
Luzzati Resolution Cutoff (Low) 50.0
Luzzati ESD (R-Free Set) 0.63
Luzzati Sigma A (R-Free Set) 0.59
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 15951
Nucleic Acid Atoms 0
Heterogen Atoms 348
Solvent Atoms 104

Software

Software
Software Name Purpose
AMoRE phasing
CNS refinement
DENZO data reduction
SCALEPACK data scaling