X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 298.0
Details PEG 4000, sodium Cacodylate, Potassium Acetate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 80.97 α = 90
b = 92.48 β = 90
c = 62.84 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 193
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2004-06-22
Diffraction Radiation
Monochromator Protocol
Silicon 111 SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CHESS BEAMLINE F2 0.93 CHESS F2
SYNCHROTRON NSLS BEAMLINE X25 0.91 NSLS X25

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
2.5 30 94.5 -- -- -- -- -- 86535 1.0 1.0 --
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)
2.5 2.6 69.4 -- -- -- -- --

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 2.6 30.0 -- 1.0 16169 13267 1392 100.0 -- 0.22128 0.21777 0.25271 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 2.6 2.668 16169 93 799 0.34 0.376 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 47.746
Anisotropic B[1][1] -3.28
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.53
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 3.81
RMS Deviations
Key Refinement Restraint Deviation
r_mcangle_it 3.119
r_symmetry_hbond_refined 0.788
r_nbd_refined 0.223
r_dihedral_angle_4_deg 20.313
r_dihedral_angle_2_deg 36.95
r_xyhbond_nbd_refined 0.144
r_angle_refined_deg 1.638
r_dihedral_angle_1_deg 1.585
r_gen_planes_refined 0.015
r_chiral_restr 0.112
r_mcbond_it 1.99
r_scbond_it 4.836
r_bond_refined_d 0.013
r_dihedral_angle_3_deg 13.308
r_scangle_it 7.298
r_symmetry_vdw_refined 0.251
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2930
Nucleic Acid Atoms 0
Heterogen Atoms 43
Solvent Atoms 156

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.9999
HKL-2000 data collection
AMoRE phasing