X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.5
Temperature 293.0
Details PEG 6000, sodium chloride, glycerol, Tris-HCl , pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K, pH 7.50

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 40.95 α = 96.44
b = 41.52 β = 91.77
c = 102.99 γ = 119.52
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH MIRRORS 2001-12-14
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON LURE BEAMLINE DW32 -- LURE DW32

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
2.23 50.64 94.8 0.083 -- -- 1.8 -- 27022 -- 0.0 23.9
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)
2.23 2.29 74.3 0.255 -- 2.9 1.6 --

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 2.23 50.64 -- 0.0 27020 25664 1356 94.8 -- 0.176 0.174 0.224 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 2.23 2.29 -- 84 1555 0.233 0.273 -- --
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model ISOTROPIC
Mean Isotropic B 18.11
Anisotropic B[1][1] -0.46
Anisotropic B[1][2] 0.18
Anisotropic B[1][3] 0.19
Anisotropic B[2][2] -0.7
Anisotropic B[2][3] -0.26
Anisotropic B[3][3] 1.29
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 2.305
r_scbond_it 1.593
r_mcangle_it 2.213
r_nbd_refined 0.218
r_gen_planes_refined 0.003
r_chiral_restr 0.058
r_dihedral_angle_1_deg 5.139
r_angle_refined_deg 0.904
r_bond_refined_d 0.006
r_xyhbond_nbd_refined 0.199
r_symmetry_vdw_refined 0.266
r_symmetry_hbond_refined 0.191
r_mcbond_it 1.365
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.221
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.292
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4818
Nucleic Acid Atoms 0
Heterogen Atoms 44
Solvent Atoms 362

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
BEAST Structure Solution
REFMAC 5.1.24 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.24 refinement