X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 291.0
Details PEG8000, HEPES, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 291.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 138.65 α = 90
b = 49.22 β = 117.32
c = 68.93 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 1999-12-08
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SPRING-8 BEAMLINE BL44B2 0.7 SPRING-8 BL44B2

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
1.8 40 97.7 0.05 4.6 -- 6.7 252800 37507 -- -- 36.99
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)
1.8 1.9 96.6 0.2239 20.3 3.7 3.4 5384

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 and MR 1.8 10.0 -- 2.0 37123 33443 3680 96.9 -- -- 0.2154 0.2591 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 1.8 1.91 5465 617 -- 0.3076 0.3435 -- 97.6
X Ray Diffraction 1.91 2.06 5578 590 -- 0.2491 0.2971 -- 0.9596
X Ray Diffraction 2.06 2.26 5573 574 -- 0.2409 0.3012 -- 0.9714
X Ray Diffraction 2.26 2.59 5607 613 -- 0.2357 0.2868 -- 0.9752
X Ray Diffraction 2.59 3.24 5607 653 -- 0.2304 0.288 -- 0.9781
X Ray Diffraction 3.24 10.0 5613 633 -- 0.2103 0.2286 -- 0.9591
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model individual restrained
Mean Isotropic B 41.64
Anisotropic B[1][1] 4.25
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -6.046
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.796
RMS Deviations
Key Refinement Restraint Deviation
c_scangle_it 3.037
c_scbond_it 2.443
c_mcangle_it 2.002
c_mcbond_it 1.525
c_improper_angle_d 0.83
c_dihedral_angle_d 21.88
c_angle_deg 1.59
c_bond_d 0.045
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.2503
Luzzati Sigma A (Observed) 0.1863
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.3036
Luzzati Sigma A (R-Free Set) 0.2075
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2826
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 376

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
SHARP, SOLVE, AMORE Structure Solution
CNS 1.0 Structure Refinement
Software
Software Name Purpose
CNS version: 1.0 refinement
AMORE model building
SOLVE model building
SHARP model building