X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
Temperature 293.0
Details 18-24% PEG 3350, 0.3M LiSO4, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 75.45 α = 90
b = 77.06 β = 101.95
c = 87.22 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2006-11-22
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID29 0.976 ESRF ID29

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
2.8 20 94.5 0.117 0.117 -- 3.72 -- 22991 0.0 0.0 53.064
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)
2.8 2.9 78.7 0.444 0.444 2.37 2.66 --

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 2.8 15.0 -- -- -- 22857 2277 94.82 -- 0.23718 0.21485 0.28987 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 2.8 2.896 -- 179 1650 0.345 0.451 -- 79.9
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 52.527
Anisotropic B[1][1] -1.77
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 4.54
Anisotropic B[2][2] 0.78
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.87
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 5.639
r_symmetry_hbond_refined 0.347
r_mcangle_it 0.92
r_scangle_it 0.923
r_chiral_restr 0.068
r_angle_refined_deg 0.962
r_gen_planes_refined 0.004
r_dihedral_angle_2_deg 33.681
r_mcbond_it 0.506
r_xyhbond_nbd_refined 0.247
r_nbd_refined 0.261
r_bond_refined_d 0.006
r_symmetry_vdw_refined 0.265
r_dihedral_angle_4_deg 18.44
r_dihedral_angle_3_deg 19.717
r_nbtor_refined 0.333
r_scbond_it 0.589
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6617
Nucleic Acid Atoms 0
Heterogen Atoms 6
Solvent Atoms 24

Software

Software
Software Name Purpose
XSCALE data scaling
AMoRE phasing
REFMAC refinement version: 5.2.0019
PDB_EXTRACT data extraction version: 3.006
ADSC data collection version: Quantum
XDS data reduction