X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 7
Temperature 398.0
Details 25% PEG 4000, 0.175M ammonium sulfate, 15% MPD, VAPOR DIFFUSION, temperature 398K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 248.44 α = 90
b = 121.12 β = 124.64
c = 151.84 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
IMAGE PLATE MAR scanner 345 mm plate -- 2001-12-17
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL9-1 -- SSRL BL9-1

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
1.65 24.6 94.7 0.062 -- -- 2.8 -- 419014 -- -- --
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)
1.65 1.69 -- 0.42 -- 2.2 2.6 --

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 1.65 24.6 -- -- -- 419014 20998 94.7 0.16029 0.16029 0.1605 0.18673 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 1.65 1.69 -- 1518 28231 0.234 0.271 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 17.86
Anisotropic B[1][1] 0.5
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.58
Anisotropic B[2][2] 0.21
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.05
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 5.983
r_scbond_it 3.852
r_mcangle_it 2.52
r_nbd_refined 0.346
r_gen_planes_refined 0.001
r_chiral_restr 0.108
r_dihedral_angle_3_deg 14.4
r_dihedral_angle_1_deg 5.589
r_angle_refined_deg 1.517
r_bond_refined_d 0.01
r_xyhbond_nbd_refined 0.133
r_symmetry_vdw_refined 0.175
r_symmetry_hbond_refined 0.199
r_mcbond_it 1.604
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 23704
Nucleic Acid Atoms 0
Heterogen Atoms 488
Solvent Atoms 3981

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
AMORE Structure Solution
REFMAC 5 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.0 refinement
AMORE model building
SCALA data reduction
MOSFLM data collection