X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5
Temperature 298.0
Details 2.3 M Ammoniumsulfate, 0.1M Citric acid, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 73.89 α = 90
b = 73.89 β = 90
c = 183.35 γ = 90
Symmetry
Space Group P 41 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 MIRROR 2006-04-22
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID23-1 0.980 ESRF ID23-1

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 68 99.8 -- 0.061 -- 3.8 -- 67896 -- -- --
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 1.69 100.0 -- 0.407 2.8 -- --

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 57.54 0.0 0.0 -- 64263 3451 99.73 -- 0.18416 0.18235 0.21852 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 -- 256 4687 0.245 0.342 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 22.752
Anisotropic B[1][1] 0.38
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.38
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.77
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.229
r_dihedral_angle_1_deg 5.639
r_dihedral_angle_3_deg 13.139
r_chiral_restr 0.09
r_nbtor_refined 0.3
r_scbond_it 2.956
r_sphericity_bonded 4.251
r_xyhbond_nbd_refined 0.125
r_bond_refined_d 0.011
r_mcbond_it 1.203
r_symmetry_hbond_refined 0.124
r_dihedral_angle_2_deg 31.638
r_nbd_refined 0.195
r_rigid_bond_restr 2.481
r_dihedral_angle_4_deg 16.707
r_scangle_it 3.752
r_symmetry_vdw_refined 0.213
r_mcangle_it 1.75
r_gen_planes_refined 0.005
r_sphericity_free 4.331
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.37
Luzzati Sigma A (Observed) 0.35
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.39
Luzzati Sigma A (R-Free Set) 0.32
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2764
Nucleic Acid Atoms 0
Heterogen Atoms 37
Solvent Atoms 487

Software

Software
Software Name Purpose
REFMAC refinement version: 5.3.0008
ADSC data collection version: Quantum
MOSFLM data reduction
SCALA data scaling
PHASER phasing