X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6
Temperature 277.0
Details HANGING DROP VAPOR DIFFUSION USING 5 MICROLITER DROPS CONTAINING EQUAL VOLUMES OF PROTEIN CONCENTRATE (10 MG/ML) AND RESERVOIR SOLUTION: CONTAINING 1.4 M SODIUM CITRATE, PH 6.0., VAPOR DIFFUSION, HANGING DROP, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 81.56 α = 90
b = 81.56 β = 90
c = 86.09 γ = 120
Symmetry
Space Group P 62

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
2 100
3 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 1999-04-05
CCD APS-1 -- 1999-06-10
CCD MARRESEARCH -- 1999-09-18
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 5.0.2 -- ALS 5.0.2
SYNCHROTRON APS BEAMLINE 19-ID -- APS 19-ID
SYNCHROTRON APS BEAMLINE 17-ID -- APS 17-ID

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
1.73 20 99.5 0.038 -- -- 5.8 33058 33694 2.0 2.0 17.5
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)
1.73 1.79 97.1 0.216 -- -- 5.0 3274

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
SULFUR SAS 1.73 19.84 0.0 0.0 33058 33058 2665 97.5 0.191 0.191 0.188 0.205 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 1.73 1.84 -- 372 4611 0.261 0.302 0.016 88.6
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 18.6
Anisotropic B[1][1] 0.87
Anisotropic B[1][2] 0.98
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.87
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.75
RMS Deviations
Key Refinement Restraint Deviation
c_scangle_it 3.59
c_scbond_it 2.48
c_mcangle_it 1.84
c_mcbond_it 1.3
c_improper_angle_d 0.71
c_dihedral_angle_d 19.6
c_angle_deg 1.1
c_bond_d 0.005
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.18
Luzzati Sigma A (Observed) 0.15
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.21
Luzzati Sigma A (R-Free Set) 0.18
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1556
Nucleic Acid Atoms 0
Heterogen Atoms 34
Solvent Atoms 266

Software

Computing
Computing Package Purpose
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
SOLVE, ISAS Structure Solution
CNS Structure Refinement
Software
Software Name Purpose
CNS refinement
SOLVE version: FOLLOWED BY ISAS model building