X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
Temperature 282.0
Details PEG4K, 0.2 Ammonium Sulfate, 50mM HEPES 6.7-7.0, VAPOR DIFFUSION, SITTING DROP, temperature 282K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 126.24 α = 90
b = 126.24 β = 90
c = 94.42 γ = 120
Symmetry
Space Group P 31 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2002-01-01
Diffraction Radiation
Monochromator Protocol
GRAPHITE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL9-2 0.954 SSRL BL9-2

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
1.98 41.32 95.5 -- 0.074 -- 3.88 60661 57912 -3.0 -3.0 --
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)
1.98 2.01 100.0 -- 0.601 2.02 3.91 2996

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 1.98 41.32 -- 0.0 57912 54999 2913 96.0 -- 0.22794 0.2269 0.24732 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 1.981 2.033 -- 196 3599 0.246 0.291 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 23.295
Anisotropic B[1][1] -0.17
Anisotropic B[1][2] -0.09
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.17
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.26
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_refined 0.206
r_gen_planes_refined 0.005
r_chiral_restr 0.135
r_dihedral_angle_1_deg 5.978
r_angle_refined_deg 1.369
r_bond_refined_d 0.014
r_xyhbond_nbd_refined 0.126
r_symmetry_vdw_refined 0.183
r_symmetry_hbond_refined 0.068
r_mcbond_it 0.614
r_mcangle_it 1.148
r_scbond_it 2.146
r_scangle_it 3.565
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3014
Nucleic Acid Atoms 0
Heterogen Atoms 91
Solvent Atoms 251

Software

Computing
Computing Package Purpose
HKL-2000 Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMORE Structure Solution
REFMAC 5.1.24 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.24 refinement
AMoRE model building
SCALEPACK data reduction
HKL-2000 data collection