X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7
Temperature 288.0
Details PEG 3000, ethylene glycol, isopropanol, glycerol, DTT, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 288K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 60.11 α = 90
b = 79.02 β = 90
c = 164.55 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 93
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210 -- 2003-08-28
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALS BEAMLINE 8.3.1 1.1 ALS 8.3.1

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
1.6 81.65 92.25 0.063 -- -- 3.5 91225 91225 0.0 0.0 --
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)
1.6 1.642 93.9 0.758 -- 1.53 3.5 7113

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 1.6 81.65 0.0 0.0 91225 91225 4787 92.25 0.18683 0.18683 0.1859 0.2042 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 1.6 1.642 7113 358 6755 0.324 0.366 -- 93.9
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 10.791
Anisotropic B[1][1] 2.7
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.15
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.55
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_refined 0.22
r_scangle_it 2.622
r_nbd_other 0.224
r_symmetry_vdw_refined 0.16
r_bond_refined_d 0.009
r_nbtor_other 0.081
r_angle_refined_deg 1.164
r_dihedral_angle_1_deg 2.777
r_symmetry_hbond_refined 0.082
r_gen_planes_refined 0.006
r_bond_other_d 0.002
r_mcangle_it 0.905
r_angle_other_deg 0.827
r_metal_ion_refined 0.015
r_chiral_restr 0.074
r_mcbond_it 0.475
r_xyhbond_nbd_refined 0.141
r_scbond_it 1.605
r_symmetry_vdw_other 0.307
r_gen_planes_other 0.008
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.092
Luzzati ESD (R-Free Set) 0.087
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5246
Nucleic Acid Atoms 0
Heterogen Atoms 100
Solvent Atoms 443

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.25
Blu-Ice data collection
ELVES data scaling
EPMR phasing